Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold128
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1835488
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 7 of 11
Found at i:1211268 original size:31 final size:28
Alignment explanation
Indices: 1211240--1211316 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
1211230 ATTTTTCACA
*
1211240 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
1211268 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
1211296 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
1211317 GCTTTATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1211339 original size:261 final size:262
Alignment explanation
Indices: 1210874--1211364 Score: 867
Period size: 261 Copynumber: 1.9 Consensus size: 262
1210864 AATTGTTCAT
*
1210874 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCTATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* *
1210939 CCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCGCAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
1211004 CTCATCGGCGATACTCCAACCCCGTGACCTCCGAGGGGATACTCCAACCCCAGCTTTATCCCCAA
131 CTCATCGGCGATACTCCAACCCCGTGACCTCCGAGGGGATACTCCAACCCCAGCTTTATCCCCAA
1211069 AATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCC
196 AATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCC
1211134 AC
261 AC
* *
1211136 AATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1211201 CCAACTCCGATTTTATTTCC-AAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
* * * * **
1211265 TTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
131 CTCATCGGCGATACTCCAACCCCGTGACCTCCGAGGGGATACTCCAACCCCAGCTTTATCCCCAA
*
1211330 AATATTGATTTCTCATAATTGGGGATACTCCAACC
196 AATATTGATTTCTCATAATCGGGGATACTCCAACC
1211365 CCATTATTTC
Statistics
Matches: 217, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
261 135 0.62
262 82 0.38
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (262 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
CTCATCGGCGATACTCCAACCCCGTGACCTCCGAGGGGATACTCCAACCCCAGCTTTATCCCCAA
AATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTCC
AC
Found at i:1211354 original size:79 final size:79
Alignment explanation
Indices: 1211268--1211472 Score: 225
Period size: 79 Copynumber: 2.6 Consensus size: 79
1211258 TCGTTATTTC
** *
1211268 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTT-TATTTCCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GATTCTATTTCC-AAA
* *
1211332 T-ATTGATTTCTCATA
64 TCATCGATTTCTCACA
* * * * * * *
1211347 ATTGGGGATACTCCAACCCCATTATTTCTGAGGGGACACTCCAATCCCGATTCTATTTTCTAATC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTCTATTTCCAAATC
*
1211412 ATCGATTTTTCACA
66 ATCGATTTCTCACA
* * * *
1211426 ATCGGGGATACTTCAACCCCGTTATTTTCAAGGGGATAATCCAACCC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCC
1211473 TGTTATTATC
Statistics
Matches: 102, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
78 6 0.06
79 96 0.94
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTCTATTTCCAAATC
ATCGATTTCTCACA
Found at i:1211382 original size:107 final size:107
Alignment explanation
Indices: 1211192--1211395 Score: 248
Period size: 107 Copynumber: 1.9 Consensus size: 107
1211182 TCCTTTAATC
* * *
1211192 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
* * * *
1211257 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCCATTATTTCATAGGGGACACTCCAACCCCGTTACCTCCGA
* * *** * * *
1211299 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
*
1211364 CCCATTATTTC-TGAGGGGACACTCCAATCCCG
66 CCCATTATTTCAT-AGGGGACACTCCAACCCCG
1211396 ATTCTATTTT
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
106 1 0.01
107 79 0.99
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
CCCATTATTTCATAGGGGACACTCCAACCCCGTTACCTCCGA
Found at i:1216637 original size:11 final size:12
Alignment explanation
Indices: 1216621--1216649 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1216611 CTAAGAGATC
1216621 TTTTTGCTG-TG
1 TTTTTGCTGCTG
1216632 TTTTTGCTGCTG
1 TTTTTGCTGCTG
1216644 TTTTTG
1 TTTTTG
1216650 AGTTGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.00, C:0.10, G:0.24, T:0.66
Consensus pattern (12 bp):
TTTTTGCTGCTG
Found at i:1218961 original size:41 final size:40
Alignment explanation
Indices: 1218915--1219158 Score: 195
Period size: 41 Copynumber: 6.0 Consensus size: 40
1218905 ACATTATCAA
* * * *
1218915 TTTTGCCTTGGTCAACCCCTTTAACATGTTGGTTTTATTGG
1 TTTTGCCTTGGCCAACCCCTCTAA-TTGTTGGCTTTATTGG
*
1218956 TTTTGCCTTGGCCAACCCCTCTAATTGGTTGAC-TTATTGG
1 TTTTGCCTTGGCCAACCCCTCTAATT-GTTGGCTTTATTGG
* * * * *
1218996 TTTTGCCTGGGTCAACCCCTCTAACATGTTGGCTATATTAG
1 TTTTGCCTTGGCCAACCCCTCTAA-TTGTTGGCTTTATTGG
* *
1219037 TTTTGCAC-TGGCCAACCCCTCTAATTGGTTGACTTTATCGG
1 TTTTGC-CTTGGCCAACCCCTCTAATT-GTTGGCTTTATTGG
** * * *
1219078 TTTTATCTTGGCTAACCCCTCTAATTTGTTGGTTTTATGGG
1 TTTTGCCTTGGCCAACCCCTCTAA-TTGTTGGCTTTATTGG
* * * *** *
1219119 TTTTACTTTGGCTAAGATCTCTAATTAGTTGACTTTATTG
1 TTTTGCCTTGGCCAACCCCTCTAATT-GTTGGCTTTATTG
1219159 ACTTTACCCC
Statistics
Matches: 163, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
40 39 0.24
41 121 0.74
42 3 0.02
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (40 bp):
TTTTGCCTTGGCCAACCCCTCTAATTGTTGGCTTTATTGG
Found at i:1219040 original size:81 final size:82
Alignment explanation
Indices: 1218892--1219081 Score: 276
Period size: 81 Copynumber: 2.3 Consensus size: 82
1218882 TTGTGACACG
** * * * * *
1218892 CTCTAATTGGTTGACATTATCAATTTTGCCTTGGTCAACCCCTTTAACATGTTGGTTTTATTGGT
1 CTCTAATTGGTTGACATTATCGGTTTTGCCTGGGTCAACCCCTCTAACATGTTGGCTATATTAGT
1218957 TTTGC-CTTGGCCAACCC
66 TTTGCAC-TGGCCAACCC
*
1218974 CTCTAATTGGTTGAC-TTATTGGTTTTGCCTGGGTCAACCCCTCTAACATGTTGGCTATATTAGT
1 CTCTAATTGGTTGACATTATCGGTTTTGCCTGGGTCAACCCCTCTAACATGTTGGCTATATTAGT
1219038 TTTGCACTGGCCAACCC
66 TTTGCACTGGCCAACCC
*
1219055 CTCTAATTGGTTGACTTTATCGGTTTT
1 CTCTAATTGGTTGACATTATCGGTTTT
1219082 ATCTTGGCTA
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 71 0.73
82 26 0.27
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (82 bp):
CTCTAATTGGTTGACATTATCGGTTTTGCCTGGGTCAACCCCTCTAACATGTTGGCTATATTAGT
TTTGCACTGGCCAACCC
Found at i:1219216 original size:163 final size:163
Alignment explanation
Indices: 1218892--1219241 Score: 388
Period size: 163 Copynumber: 2.2 Consensus size: 163
1218882 TTGTGACACG
* * * *
1218892 CTCTAATTGGTTGACATTATCAATTTTGCCTTGGTCAACCCCTTTAACATGTTGGTTTTATTGGT
1 CTCTAATTGGTTGACTTTATCAATTTTACCTTGGTCAACCCCTCTAACATGTTGGTTTTATGGGT
* * * ** * ***
1218957 TTTGCCTTGGCCAACCCCTCTAATTGGTTGACTTATTGGTTTTGCCTGGGTCAACCCCTCTAACA
66 TTTACCTTGGCCAACACCTCTAATTAGTTGACTTATTGACTTTACCCCAGTCAACCCCTCTAACA
*
1219022 TGTTGGCTATATTAGTTTTGCACTGGCCAACCC
131 TGTTGGCTATATTAGTTTTGCACTAGCCAACCC
** * **
1219055 CTCTAATTGGTTGACTTTATCGGTTTTATCTTGG-CTAACCCCTCTAATTTGTTGGTTTTATGGG
1 CTCTAATTGGTTGACTTTATCAATTTTACCTTGGTC-AACCCCTCTAACATGTTGGTTTTATGGG
* * * *
1219119 TTTTACTTTGGCTAAGATCTCTAATTAGTTGACTTTATTGACTTTACCCCAGTCAACCCCT-TAA
65 TTTTACCTTGGCCAACACCTCTAATTAGTTGAC-TTATTGACTTTACCCCAGTCAACCCCTCT-A
* *
1219183 ATCTAT-TT-GCTTTATTAGTTTT-CTCTAGCCAACCC
128 A-C-ATGTTGGCTATATTAGTTTTGCACTAGCCAACCC
1219218 CTCTAA-TGGTTGACTTTATCAATT
1 CTCTAATTGGTTGACTTTATCAATT
1219242 CCGCCATGGT
Statistics
Matches: 155, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
162 17 0.11
163 97 0.63
164 36 0.23
165 3 0.02
166 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (163 bp):
CTCTAATTGGTTGACTTTATCAATTTTACCTTGGTCAACCCCTCTAACATGTTGGTTTTATGGGT
TTTACCTTGGCCAACACCTCTAATTAGTTGACTTATTGACTTTACCCCAGTCAACCCCTCTAACA
TGTTGGCTATATTAGTTTTGCACTAGCCAACCC
Found at i:1219494 original size:40 final size:40
Alignment explanation
Indices: 1219450--1219640 Score: 120
Period size: 41 Copynumber: 4.7 Consensus size: 40
1219440 ATTGACTTAT
1219450 CCTAGTCAACCCCTTAAATCTGTTGGCTTTATTAGTTTTC-
1 CCTAGTCAACCCCTTAAAT-TGTTGGCTTTATTAGTTTTCA
* * * * *
1219490 CCTAGCCAACCCCTCT-AATGGTTGACTTTA-TCGATTTCA
1 CCTAGTCAACCCCT-TAAATTGTTGGCTTTATTAGTTTTCA
* * * * *
1219529 CCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAG-TTTCT
1 CC-TAGTCAACCCCTTAAA-TTGTTGGCTTTATTAGTTTTCA
* * ** **
1219570 CCTAAGCCAACCCCTTAAATTGGTTGACTTTATCGGTTTTGG
1 CCT-AGTCAACCCCTTAAATT-GTTGGCTTTATTAGTTTTCA
* * *
1219612 CCTAGTCAACTCCTCAAATCTATTGGCTT
1 CCTAGTCAACCCCTTAAAT-TGTTGGCTT
1219641 GACTAATTTC
Statistics
Matches: 112, Mismatches: 29, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
38 6 0.05
39 11 0.10
40 30 0.27
41 56 0.50
42 9 0.08
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (40 bp):
CCTAGTCAACCCCTTAAATTGTTGGCTTTATTAGTTTTCA
Found at i:1219538 original size:80 final size:82
Alignment explanation
Indices: 1219454--1219640 Score: 222
Period size: 82 Copynumber: 2.3 Consensus size: 82
1219444 ACTTATCCTA
* *
1219454 GTCAACCCCTTAAATCTGTTGGCTTTATTAGTTT-TCCCT-AGCCAACCCCTCT-AA-TGGTTGA
1 GTCAACCCCTCAAATCTGTTGGCTTAATTAGTTTCT-CCTAAGCCAACCCCT-TAAATTGGTTGA
1219515 CTTTATCGATTTCACCATG
64 CTTTATCGATTTCACCATG
* *
1219534 GTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACT
1 GTCAACCCCTCAAATCTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACT
* ** *
1219599 TTATCGGTTTTGGCC-TA
66 TTATC-GATTTCACCATG
* *
1219616 GTCAACTCCTCAAATCTATTGGCTT
1 GTCAACCCCTCAAATCTGTTGGCTT
1219641 GACTAATTTC
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
80 34 0.38
81 14 0.16
82 36 0.40
83 6 0.07
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (82 bp):
GTCAACCCCTCAAATCTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACT
TTATCGATTTCACCATG
Found at i:1219546 original size:284 final size:285
Alignment explanation
Indices: 1219106--1219678 Score: 932
Period size: 284 Copynumber: 2.0 Consensus size: 285
1219096 CTCTAATTTG
* *
1219106 TTGGTTTTATGGGTTTTACTTTGGCTAAGATCTCTAATTAGTTGACTTTATTGACTTTACCCCAG
1 TTGGTTTTATCGGTTTTACTTTGGCTAACATCTCTAATTAGTTGACTTTATTGACTTTACCCCAG
* *
1219171 TCAACCCCTTAAATCTATTTGCTTTATTAGTTTTCTCTAGCCAACCCCTCTAATGGTTGACTTTA
66 TCAACCCCTTAAATCTATTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTA
* * * *
1219236 TCAATTCCGCCATGGTCAATCCCTCAAATTTGTTGGTTTAATTAGTTTCTTCTAAGCCAACCTCT
131 TCAATTCCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCT
* * *
1219301 TAAATTGGTTGACTTTATCAGTTTTGGCCTAGTCAGCCCCTTAAATCTATTGGCTTTACCAATTT
196 TAAATTGGTTGACTTTATCAGTTTTGGCCTAGTCAACCCCTCAAATCTATTGGCTTGACCAATTT
*
1219366 CGCCTTGGCCAATGCCTCTAACCTA
261 CGCCTTGGCCAACGCCTCTAACCTA
* * * *
1219391 TTGGTTTTATCTGTTTTACTTTGGCTAACTTCTCTAATTAGTTGACTTTATTGAC-TTATCCTAG
1 TTGGTTTTATCGGTTTTACTTTGGCTAACATCTCTAATTAGTTGACTTTATTGACTTTACCCCAG
*
1219455 TCAACCCCTTAAATCTGTTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTA
66 TCAACCCCTTAAATCTATTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTA
* *
1219520 TCGATTTCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCT
131 TCAATTCCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCT
* * *
1219585 TAAATTGGTTGACTTTATCGGTTTTGGCCTAGTCAACTCCTCAAATCTATTGGCTTGACTAATTT
196 TAAATTGGTTGACTTTATCAGTTTTGGCCTAGTCAACCCCTCAAATCTATTGGCTTGACCAATTT
*
1219650 CGCCTTGGCCAACGCCTTTAACCTA
261 CGCCTTGGCCAACGCCTCTAACCTA
1219675 TTGG
1 TTGG
1219679 CTTTGTCAGT
Statistics
Matches: 265, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
284 214 0.81
285 51 0.19
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (285 bp):
TTGGTTTTATCGGTTTTACTTTGGCTAACATCTCTAATTAGTTGACTTTATTGACTTTACCCCAG
TCAACCCCTTAAATCTATTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTA
TCAATTCCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCT
TAAATTGGTTGACTTTATCAGTTTTGGCCTAGTCAACCCCTCAAATCTATTGGCTTGACCAATTT
CGCCTTGGCCAACGCCTCTAACCTA
Found at i:1219620 original size:82 final size:78
Alignment explanation
Indices: 1219422--1219640 Score: 219
Period size: 80 Copynumber: 2.7 Consensus size: 78
1219412 TGGCTAACTT
* * * * *
1219422 CTCTAATTAGTTGACTTTATTGACTT-ATCCTAGTCAACCCCTTAAATCTGTTGGCTTTATTAGT
1 CTCTAA-TGGTTGACTTTATCGATTTCA-CCTAGTCAA-CCCTCAAATCTGTTGGCTTAATTAGT
1219486 TTTCCCTAGCCAACCC
63 TTTCCCTAGCCAACCC
* *
1219502 CTCTAATGGTTGACTTTATCGATTTCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAG-T
1 CTCTAATGGTTGACTTTATCGATTTCACC-TAGTCAA-CCCTCAAATCTGTTGGCTTAATTAGTT
1219566 TTCTCCTAAGCCAACCC
64 TTC-CCT-AGCCAACCC
* ** *
1219583 CT-TAAATTGGTTGACTTTATCGGTTTTGGCCTAGTCAACTCCTCAAATCTATTGGCTT
1 CTCT-AA-TGGTTGACTTTATC-GATTTCACCTAGTCAAC-CCTCAAATCTGTTGGCTT
1219641 GACTAATTTC
Statistics
Matches: 117, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
79 22 0.19
80 39 0.33
81 14 0.12
82 36 0.31
83 6 0.05
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (78 bp):
CTCTAATGGTTGACTTTATCGATTTCACCTAGTCAACCCTCAAATCTGTTGGCTTAATTAGTTTT
CCCTAGCCAACCC
Found at i:1219661 original size:82 final size:78
Alignment explanation
Indices: 1219431--1219667 Score: 201
Period size: 82 Copynumber: 2.9 Consensus size: 78
1219421 TCTCTAATTA
* * * * * *
1219431 GTTGACTTTATTGACTT-ATCCTAGTCAACCCCTTAAATCTGTTGGCTTTATTAGTTTTCCC-TA
1 GTTGACTTTATCGATTTCA-CCTAGTCAACTCCTCAAATCTGTTGGCTTAATTA-ATTTCCCTTA
1219494 GCCAACCCCTCTAATG
64 GCCAACCCCT-TAATG
* * * *
1219510 GTTGACTTTATCGATTTCACCATGGTCAA-TCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTA
1 GTTGACTTTATCGATTTCACC-TAGTCAACT-CCTCAAATCTGTTGGCTTAATTAATTTC-CCTT
1219574 AGCCAACCCCTTAAATTG
63 AGCCAACCCCTT-AA-TG
* ** * * * *
1219592 GTTGACTTTATCGGTTTTGGCCTAGTCAACTCCTCAAATCTATTGGCTTGACTAATTTCGCCTTG
1 GTTGACTTTATC-GATTTCACCTAGTCAACTCCTCAAATCTGTTGGCTTAATTAATTTC-CCTTA
*
1219657 GCCAACGCCTT
64 GCCAACCCCTT
1219668 TAACCTATTG
Statistics
Matches: 127, Mismatches: 22, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
79 21 0.17
80 30 0.24
81 13 0.10
82 56 0.44
83 7 0.06
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (78 bp):
GTTGACTTTATCGATTTCACCTAGTCAACTCCTCAAATCTGTTGGCTTAATTAATTTCCCTTAGC
CAACCCCTTAATG
Found at i:1221532 original size:74 final size:74
Alignment explanation
Indices: 1221411--1221558 Score: 251
Period size: 74 Copynumber: 2.0 Consensus size: 74
1221401 ACACTAACGG
* *
1221411 CTACTTGTCTTTGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATGTAACAATATGGTT
1 CTACTTGTCTTCGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATATAACAATATGGTT
1221476 TCATTTAAT
66 TCATTTAAT
* * *
1221485 CTACTTGTCTTCGGATTCGGTCTCGACATTTTAGCATACTATGTTGTTTATATAACAATATGGTT
1 CTACTTGTCTTCGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATATAACAATATGGTT
1221550 TCATTTAAT
66 TCATTTAAT
1221559 TTATTATTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (74 bp):
CTACTTGTCTTCGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATATAACAATATGGTT
TCATTTAAT
Found at i:1222453 original size:21 final size:23
Alignment explanation
Indices: 1222429--1222472 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1222419 TGCTATTATC
*
1222429 TATAT-AATATGTTCCTA-AGTA
1 TATATAAATATCTTCCTATAGTA
1222450 TATATAAATATCTTCCTATAGTA
1 TATATAAATATCTTCCTATAGTA
1222473 ATGTCCTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (23 bp):
TATATAAATATCTTCCTATAGTA
Found at i:1232459 original size:67 final size:67
Alignment explanation
Indices: 1232383--1232524 Score: 189
Period size: 67 Copynumber: 2.1 Consensus size: 67
1232373 TTAAAAAAGA
* * * *
1232383 AAAAGAAAAAGCATCCTACTTTTTGAGGACTAAAAGGA-AAAATGGTGCCACTAGCTTGTGTGAG
1 AAAA-AAAAA-CATCCTACTCTTTGAGGACTAAAAGAATAAAAT-GTGCCACCAGCTTGTATG-G
1232447 -CTTTT
62 TCTTTT
*
1232452 AAAAAAAAACATCCTGCTCTTTGAGGACTAAAAGAATAAAATGTGCCACCAGCTTGTATGGTCTT
1 AAAAAAAAACATCCTACTCTTTGAGGACTAAAAGAATAAAATGTGCCACCAGCTTGTATGGTCTT
1232517 TT
66 TT
1232519 AAAAAA
1 AAAAAA
1232525 GAAAAAAAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
66 1 0.02
67 51 0.77
68 10 0.15
69 4 0.06
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (67 bp):
AAAAAAAAACATCCTACTCTTTGAGGACTAAAAGAATAAAATGTGCCACCAGCTTGTATGGTCTT
TT
Found at i:1232647 original size:76 final size:72
Alignment explanation
Indices: 1232332--1232708 Score: 242
Period size: 73 Copynumber: 5.2 Consensus size: 72
1232322 CTGCTTTTTT
* * * * *
1232332 AGGAC-AAAGGGATAAAAA-GTGCCACCAGCTTGTGTGGGCTTTTAAAAAAGAAAAAGAAAAAGC
1 AGGACAAAAAGGA-AAAAAGGTGCCACCAACTTGGGTAGGC-TTTGAAAAAG--AAA-AAAAA-C
* *
1232395 ATCCTACTTTTTG
60 ATCCTACTCTTTA
* * * * * *
1232408 AGGACTAAAAGGAAAAATGGTGCCACTAGCTTGTGT-GAGCTTT----TA-AAAAAAAACATCCT
1 AGGACAAAAAGGAAAAAAGGTGCCACCAACTTGGGTAG-GCTTTGAAAAAGAAAAAAAACATCCT
* *
1232467 GCTCTTTG
65 ACTCTTTA
* * * *
1232475 AGGACTAAAA-GAATAAAATGTGCCACCAGCTT--GTATGGTCTTTTAAAAAAGAAAAAAAACAT
1 AGGACAAAAAGGAA-AAAAGGTGCCACCAACTTGGGTA-GG-C-TTTGAAAAAGAAAAAAAACAT
* *
1232537 CCTATTCTTTG
62 CCTACTCTTTA
*
1232548 AGGACAAAAAGGAAAAAAGGTGCCATCAACTTGGGT-GGCTTT-AAAAAGAAAAAGGAAATGCAT
1 AGGACAAAAAGGAAAAAAGGTGCCACCAACTTGGGTAGGCTTTGAAAAAGAAAAA--AAA--CAT
1232611 CCTACTCTTTA
62 CCTACTCTTTA
*
1232622 AGGACTAAAAA-GATAAAAAGGGTGCCACCAACTTGTGTAGGCTTTGAAAAAGAAAAAAAAACAT
1 AGGAC-AAAAAGGA-AAAAA-GGTGCCACCAACTTGGGTAGGCTTTGAAAAAG-AAAAAAAACAT
* * *
1232686 CATTCTCTTTG
62 CCTACTCTTTA
*
1232697 AGGACTAAAAGG
1 AGGACAAAAAGG
1232709 TGCTACTAGC
Statistics
Matches: 250, Mismatches: 24, Indels: 55
0.76 0.07 0.17
Matches are distributed among these distances:
65 2 0.01
66 4 0.02
67 39 0.16
68 8 0.03
69 3 0.01
70 11 0.04
71 3 0.01
72 6 0.02
73 46 0.18
74 26 0.10
75 29 0.12
76 29 0.12
77 33 0.13
78 6 0.02
79 5 0.02
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (72 bp):
AGGACAAAAAGGAAAAAAGGTGCCACCAACTTGGGTAGGCTTTGAAAAAGAAAAAAAACATCCTA
CTCTTTA
Found at i:1232699 original size:149 final size:138
Alignment explanation
Indices: 1232342--1232708 Score: 382
Period size: 149 Copynumber: 2.5 Consensus size: 138
1232332 AGGACAAAGG
* *
1232342 GATAAAAAGTGCCACCAGCTTGTGTGGGCTTTTAAAAAAGAAAAAGAAAAAGCATCCTACTTTTT
1 GATAAAAAGTGCCACCAGCTTGTGT-GGC-TTTAAAAAAG-AAAA-AAAAA-CATCCTTCTCTTT
* * * * *
1232407 GAGGACTAAAAGGAAAAATGGTGCCACTAGCTTGTGTGAGCTTTTAAAAAAAAACATCCTGCTCT
61 GAGGACTAAAAGGAAAAAAGGTGCCACTAACTTGGGTGAGCTTTAAAAAAAAAACATCCTACTCT
*
1232472 TTGAGGACTAAAA
126 TTAAGGACTAAAA
* *
1232485 GAATAAAATGTGCCACCAGCTTGTATGGTCTTTTAAAAAAG-AAAAAAAACATCCTAT-TCTTTG
1 G-ATAAAAAGTGCCACCAGCTTGTGTGG-C-TTTAAAAAAGAAAAAAAAACATCCT-TCTCTTTG
*
1232548 AGGACAAAAAGGAAAAAAGGTGCCA-TCAACTTGGGTG-GCTTTAAAAAGAAAAAGGAAATGCAT
62 AGGACTAAAAGGAAAAAAGGTGCCACT-AACTTGGGTGAGCTTT---AA-AAAAA--AAA--CAT
1232611 CCTACTCTTTAAGGACTAAAAA
118 CCTACTCTTTAAGGACT-AAAA
* * *
1232633 GATAAAAAGGGTGCCACCAACTTGTGTAGGCTTTGAAAAAGAAAAAAAAACATCATTCTCTTTGA
1 GATAAAAA--GTGCCACCAGCTTGTGT-GGCTTTAAAAAAGAAAAAAAAACATCCTTCTCTTTGA
1232698 GGACTAAAAGG
63 GGACTAAAAGG
1232709 TGCTACTAGC
Statistics
Matches: 189, Mismatches: 17, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
139 6 0.03
140 42 0.22
141 5 0.03
142 4 0.02
143 8 0.04
144 34 0.18
145 3 0.02
147 24 0.13
148 15 0.08
149 46 0.24
150 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (138 bp):
GATAAAAAGTGCCACCAGCTTGTGTGGCTTTAAAAAAGAAAAAAAAACATCCTTCTCTTTGAGGA
CTAAAAGGAAAAAAGGTGCCACTAACTTGGGTGAGCTTTAAAAAAAAAACATCCTACTCTTTAAG
GACTAAAA
Found at i:1232769 original size:62 final size:62
Alignment explanation
Indices: 1232637--1232858 Score: 257
Period size: 62 Copynumber: 3.5 Consensus size: 62
1232627 TAAAAAGATA
* * ** * *
1232637 AAAAGGGTGCCACCAACTTGTGT-AGGCTTTGAAAAAGAAAAAAAAACATCATTCTCTTTGAGGA
1 AAAA-GGTGCCACTAGCTTGTGTGA-GCTTT-AAAAAG--AAAAAGGCATCCTACTCTTTGAGGA
1232701 CT
61 CT
* * * ** *
1232703 AAAAGGTGCTACTAGCTTGTGTGGGCTTTAAAAAGAACAAGGTGTCCTGCTCTTTGAGGACT
1 AAAAGGTGCCACTAGCTTGTGTGAGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAGGACT
* *
1232765 AAAAGGTGCCACTAGCTTGTGTGAGTTTTAAAAAGAAAAAGGCATCCTATTCTTTGAGGACT
1 AAAAGGTGCCACTAGCTTGTGTGAGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAGGACT
*
1232827 AAAAGGTGCCACTAGCTTTTGTGAGCTTTAAA
1 AAAAGGTGCCACTAGCTTGTGTGAGCTTTAAA
1232859 TGAAAAGAAA
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
62 104 0.78
64 6 0.04
65 20 0.15
66 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (62 bp):
AAAAGGTGCCACTAGCTTGTGTGAGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAGGACT
Found at i:1233370 original size:20 final size:20
Alignment explanation
Indices: 1233323--1233376 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 20
1233313 TTTTCACAAT
1233323 TTGTATCGATACATTGTTAA
1 TTGTATCGATACATTGTTAA
*
1233343 TT-TATCGATACATTGTTCA
1 TTGTATCGATACATTGTTAA
1233362 TTGTATCGATACATT
1 TTGTATCGATACATT
1233377 CTGGGTTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTGTATCGATACATTGTTAA
Found at i:1236211 original size:15 final size:16
Alignment explanation
Indices: 1236186--1236220 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1236176 ATCAATTTTG
*
1236186 TTTGAAGCTTCTTCAT
1 TTTGAAGCTTCCTCAT
1236202 TTTG-AGCTTCCTCAT
1 TTTGAAGCTTCCTCAT
1236217 TTTG
1 TTTG
1236221 GACATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTGAAGCTTCCTCAT
Found at i:1242402 original size:9 final size:9
Alignment explanation
Indices: 1242381--1242461 Score: 69
Period size: 9 Copynumber: 9.1 Consensus size: 9
1242371 ATTCGGACCC
*
1242381 TTTTTGTTG
1 TTTTTTTTG
1242390 TTTTTTTT-
1 TTTTTTTTG
*
1242398 ATTTTTTTG
1 TTTTTTTTG
1242407 TTTTTTTTG
1 TTTTTTTTG
* *
1242416 GTTTGTTTG
1 TTTTTTTTG
*
1242425 -TTTTGTT-
1 TTTTTTTTG
1242432 TTTTTTTTG
1 TTTTTTTTG
*
1242441 TTTGTTTGTTC
1 TTT-TTT-TTG
1242452 TTTTTTTTG
1 TTTTTTTTG
1242461 T
1 T
1242462 CTCTTTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
8 18 0.32
9 28 0.49
10 6 0.11
11 5 0.09
ACGTcount: A:0.01, C:0.01, G:0.15, T:0.83
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1242406 original size:20 final size:19
Alignment explanation
Indices: 1242381--1242461 Score: 90
Period size: 20 Copynumber: 3.9 Consensus size: 19
1242371 ATTCGGACCC
*
1242381 TTTTTGTTGTTTTTTTTATT
1 TTTTTGTT-TTTTTTTTGTT
1242401 TTTTTGTTTTTTTTGGTTTGTT
1 TTTTTG-TTTTTTT--TTTGTT
1242423 TGTTTTGTTTTTTTTTTGTT
1 T-TTTTGTTTTTTTTTTGTT
*
1242443 TGTTTGTTCTTTTTTTTGT
1 TTTTTGTT-TTTTTTTTGT
1242462 CTCTTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
19 6 0.11
20 28 0.52
21 2 0.04
22 13 0.24
23 5 0.09
ACGTcount: A:0.01, C:0.01, G:0.15, T:0.83
Consensus pattern (19 bp):
TTTTTGTTTTTTTTTTGTT
Found at i:1242434 original size:24 final size:24
Alignment explanation
Indices: 1242402--1242459 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
1242392 TTTTTTATTT
1242402 TTTTG-TTTTTTTTGGTTTGTTTG
1 TTTTGTTTTTTTTTGGTTTGTTTG
*
1242425 TTTTGTTTTTTTTTTGTTTGTTTG
1 TTTTGTTTTTTTTTGGTTTGTTTG
*
1242449 TTCT-TTTTTTT
1 TTTTGTTTTTTT
1242460 GTCTCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.83
Consensus pattern (24 bp):
TTTTGTTTTTTTTTGGTTTGTTTG
Found at i:1242468 original size:13 final size:12
Alignment explanation
Indices: 1242381--1242472 Score: 50
Period size: 12 Copynumber: 7.4 Consensus size: 12
1242371 ATTCGGACCC
*
1242381 TTTTTGTTGTTT
1 TTTTTGTTCTTT
*
1242393 TTTTTATT-TTT
1 TTTTTGTTCTTT
*
1242404 TTGTTT-TTTTTGGT
1 TT-TTTGTTCTT--T
1242418 TTGTTTGTT-TTGT
1 TT-TTTGTTCTT-T
1242431 TTTTT-TT-TTGT
1 TTTTTGTTCTT-T
1242442 TTGTTTGTTCTTT
1 TT-TTTGTTCTTT
1242455 TTTTTGTCTCTTT
1 TTTTTGT-TCTTT
1242468 TTTTT
1 TTTTT
1242473 TACGGAGGAT
Statistics
Matches: 70, Mismatches: 1, Indels: 17
0.80 0.01 0.19
Matches are distributed among these distances:
11 15 0.21
12 23 0.33
13 19 0.27
14 11 0.16
15 2 0.03
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (12 bp):
TTTTTGTTCTTT
Found at i:1256322 original size:21 final size:20
Alignment explanation
Indices: 1256296--1256334 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1256286 GTTGGGACCT
1256296 TGTATCGATACATTCTGGAAA
1 TGTATCGATACATT-TGGAAA
1256317 TGTATCGATACATTTGGA
1 TGTATCGATACATTTGGA
1256335 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTGGAAA
Found at i:1257057 original size:20 final size:21
Alignment explanation
Indices: 1257021--1257059 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1257011 AATTTGCATC
1257021 GATACAATAAGATAATGTATT
1 GATACAATAAGATAATGTATT
1257042 GATAC-ATAAG-TGAATGTA
1 GATACAATAAGAT-AATGTA
1257060 GCAATACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (21 bp):
GATACAATAAGATAATGTATT
Found at i:1257205 original size:52 final size:52
Alignment explanation
Indices: 1257124--1257242 Score: 184
Period size: 52 Copynumber: 2.3 Consensus size: 52
1257114 TCTGGAAGGA
* * * * *
1257124 AAATGTATCGATATATTTTTCATTGTATCGATACATTCTGGGTTTTCGACCC
1 AAATGTATCAATACAATTTTCATTCTATCGATACATTCTGAGTTTTCGACCC
*
1257176 AAATGTATCAATACAATTTTCATTCTATCGATACATTCTGAGTTTTTGACCC
1 AAATGTATCAATACAATTTTCATTCTATCGATACATTCTGAGTTTTCGACCC
1257228 AAATGTATCAATACA
1 AAATGTATCAATACA
1257243 TTCTTCAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (52 bp):
AAATGTATCAATACAATTTTCATTCTATCGATACATTCTGAGTTTTCGACCC
Found at i:1260840 original size:21 final size:21
Alignment explanation
Indices: 1260814--1260890 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1260804 TTTTTATCCA
1260814 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1260835 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
1260856 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
1260877 AATGTATCGATACA
1 AATGTATCGATACA
1260891 AGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1260973 original size:19 final size:19
Alignment explanation
Indices: 1260949--1260998 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1260939 ATTTGGTAAA
*
1260949 TGTATCAATACATAAGTAT
1 TGTATCGATACATAAGTAT
*
1260968 TGTATCGATACATAAGTCT
1 TGTATCGATACATAAGTAT
1260987 TGTATCGATACA
1 TGTATCGATACA
1260999 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAGTAT
Found at i:1261068 original size:13 final size:13
Alignment explanation
Indices: 1261050--1261075 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1261040 CATTTTTCTG
1261050 TGTATCGATACAT
1 TGTATCGATACAT
1261063 TGTATCGATACAT
1 TGTATCGATACAT
1261076 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1261093 original size:34 final size:33
Alignment explanation
Indices: 1261030--1261096 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1261020 GTCAAGGAAA
*
1261030 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
1261063 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
1261097 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:1263494 original size:52 final size:51
Alignment explanation
Indices: 1263427--1263821 Score: 280
Period size: 51 Copynumber: 7.6 Consensus size: 51
1263417 TTAAGTTTCT
*
1263427 CAATTGTT-CATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* * * *
1263478 CTATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACAC
* * * * *** * * *
1263531 CAATTTTTCACAATCGAGGATACTCCAACCTCG-TTATCTCATCGGCGATACTC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATT-T-T-ATTTCCAAAACAC
** * * * ** * *
1263584 CAA--CCCCGTTACCTCCGAGGGGATACTCCAACCCC-AGGTTTATCCCCAAAATAT
1 CAATTTTCC-ATA-AT-C--GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACAC
** * *
1263638 TGA-TTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTC-CATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* * * * *
1263689 TAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* *
1263740 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* * *
1263792 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
1263822 TCGTTATTTC
Statistics
Matches: 261, Mismatches: 65, Indels: 36
0.72 0.18 0.10
Matches are distributed among these distances:
50 2 0.01
51 102 0.39
52 101 0.39
53 22 0.08
54 12 0.05
55 4 0.02
56 17 0.07
57 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
Found at i:1263608 original size:28 final size:28
Alignment explanation
Indices: 1263548--1263618 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
1263538 TCACAATCGA
* * **
1263548 GGATACTCCAACCTCGTTATCTCATCGG
1 GGATACTCCAACCCCGTTACCTCAGAGG
* *
1263576 CGATACTCCAACCCCGTTACCTCCGAGG
1 GGATACTCCAACCCCGTTACCTCAGAGG
1263604 GGATACTCCAACCCC
1 GGATACTCCAACCCC
1263619 AGGTTTATCC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.21
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACCTCAGAGG
Found at i:1263832 original size:31 final size:28
Alignment explanation
Indices: 1263804--1263880 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
1263794 ATTTTTCACA
*
1263804 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
1263832 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
1263860 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
1263881 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1263903 original size:261 final size:262
Alignment explanation
Indices: 1263438--1263930 Score: 873
Period size: 261 Copynumber: 1.9 Consensus size: 262
1263428 AATTGTTCAT
*
1263438 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCTATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
*
1263503 CCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
*
1263568 CTCATCGGCGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCAGGTTTATCCCCAA
131 CTCATCGGCGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCAGCTTTATCCCCAA
1263633 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
196 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
1263698 AC
261 AC
* *
1263700 AATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1263765 CCAACTCCGATTTTATTTCC-AAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
* * **
1263829 TTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCC-GACTTTATTTCCA
131 CTCATCGGCGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCAG-CTTTATCCCCA
*
1263893 AAATATTGATTTCTCATAATTGGGGATACTCCAACCCC
195 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCC
1263931 ATTATTTCTG
Statistics
Matches: 220, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
260 1 0.00
261 137 0.62
262 82 0.37
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (262 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
CTCATCGGCGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCAGCTTTATCCCCAA
AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
AC
Found at i:1263918 original size:79 final size:79
Alignment explanation
Indices: 1263834--1264036 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
1263824 GTTATTTCAT
**
1263834 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTT-TATTTCCAAAAT-
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGA-TTCTATTTCC-AAATC
* * *
1263897 ATTGATTTCTCATAAT
64 ATCGATTTCTCACAAC
* * * * * * *
1263913 TGGGGATACTCCAACCCCATTATTTCTGAGGGGACACTCCAATCCCGATTCTATTTTCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTCTATTTCCAAATCAT
*
1263978 CGATTTTTCACAAC
66 CGATTTCTCACAAC
* * * *
1263992 CGGGGATACTTCAACCCCGTTATTTTCAAGGGGATAATCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCC
1264037 TGTTATTATC
Statistics
Matches: 100, Mismatches: 22, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
78 5 0.05
79 95 0.95
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTCTATTTCCAAATCAT
CGATTTCTCACAAC
Found at i:1263946 original size:107 final size:107
Alignment explanation
Indices: 1263756--1263959 Score: 257
Period size: 107 Copynumber: 1.9 Consensus size: 107
1263746 TCCTTTAATC
* * *
1263756 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
* * * *
1263821 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCCATTATTTCATAGGGGACACTCCAACCCCGTTACCTCCGA
* *** * * *
1263863 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
*
1263928 CCCATTATTTC-TGAGGGGACACTCCAATCCCG
66 CCCATTATTTCAT-AGGGGACACTCCAACCCCG
1263960 ATTCTATTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
106 1 0.01
107 80 0.99
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAAC
CCCATTATTTCATAGGGGACACTCCAACCCCGTTACCTCCGA
Found at i:1265515 original size:24 final size:24
Alignment explanation
Indices: 1265483--1265529 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1265473 GCCGAACCAT
1265483 GGATTAGGGTGCCTCGGCTGTCCA
1 GGATTAGGGTGCCTCGGCTGTCCA
*
1265507 GGATTAGGGTGCCTCGGTTGTCC
1 GGATTAGGGTGCCTCGGCTGTCC
1265530 TTACCAGACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.11, C:0.23, G:0.38, T:0.28
Consensus pattern (24 bp):
GGATTAGGGTGCCTCGGCTGTCCA
Found at i:1273316 original size:13 final size:13
Alignment explanation
Indices: 1273298--1273322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1273288 CATAAAATGT
1273298 TGTATCGATACAA
1 TGTATCGATACAA
1273311 TGTATCGATACA
1 TGTATCGATACA
1273323 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1273405 original size:13 final size:13
Alignment explanation
Indices: 1273387--1273411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1273377 ATTACTCAAA
1273387 TGTATCGATACAT
1 TGTATCGATACAT
1273400 TGTATCGATACA
1 TGTATCGATACA
1273412 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1273476 original size:52 final size:52
Alignment explanation
Indices: 1273420--1273539 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
1273410 CACCGATCTT
* *
1273420 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
1273472 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
1273524 TGTATCGATACATGCA
1 TGTATCGATACATGCA
1273540 AGTAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:1280281 original size:11 final size:12
Alignment explanation
Indices: 1280275--1280319 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
1280265 CCAAAAGCAA
1280275 AAAAAAAACAAC
1 AAAAAAAACAAC
*
1280287 AAAAAAAATGAAC
1 AAAAAAAA-CAAC
1280300 AAAAAAAA-AAC
1 AAAAAAAACAAC
1280311 AAAGAAAAA
1 AAA-AAAAA
1280320 AAGAAGAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 6 0.20
12 13 0.43
13 11 0.37
ACGTcount: A:0.84, C:0.09, G:0.04, T:0.02
Consensus pattern (12 bp):
AAAAAAAACAAC
Found at i:1280289 original size:14 final size:14
Alignment explanation
Indices: 1280272--1280321 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
1280262 AAACCAAAAG
1280272 CAAAAAAAAAACAA
1 CAAAAAAAAAACAA
**
1280286 C-AAAAAAAATGAA
1 CAAAAAAAAAACAA
1280299 CAAAAAAAAAACAA
1 CAAAAAAAAAACAA
1280313 -AGAAAAAAA
1 CA-AAAAAAA
1280322 GAAGAATCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (14 bp):
CAAAAAAAAAACAA
Found at i:1280290 original size:13 final size:12
Alignment explanation
Indices: 1280274--1280321 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
1280264 ACCAAAAGCA
1280274 AAAAAAAAACAAC
1 AAAAAAAAA-AAC
*
1280287 AAAAAAAATGAAC
1 AAAAAAAA-AAAC
1280300 -AAAAAAAAAAC
1 AAAAAAAAAAAC
1280311 AAAGAAAAAAA
1 AAA-AAAAAAA
1280322 GAAGAATCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 3 0.10
12 9 0.30
13 18 0.60
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:1280320 original size:11 final size:11
Alignment explanation
Indices: 1280256--1280321 Score: 62
Period size: 11 Copynumber: 5.8 Consensus size: 11
1280246 CTTCTTTTCT
*
1280256 AAAAAAAAACC
1 AAAAAAAAACA
**
1280267 AAAAGCAAA-A
1 AAAAAAAAACA
*
1280277 AAAAAACAACA
1 AAAAAAAAACA
1280288 AAAAAAATGAACA
1 AAAAAAA--AACA
1280301 AAAAAAAAACA
1 AAAAAAAAACA
1280312 AAGAAAAAAA
1 AA-AAAAAAA
1280322 GAAGAATCTG
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
10 6 0.14
11 20 0.45
12 7 0.16
13 11 0.25
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.02
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:1281578 original size:55 final size:54
Alignment explanation
Indices: 1281289--1282115 Score: 893
Period size: 55 Copynumber: 14.4 Consensus size: 54
1281279 CTCTTTCCGC
*
1281289 TTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
** *
1281349 CCTTCAGTCCTCAAAGAGCAGGATGTTTTTTCATTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATG------CCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1281409 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** *
1281469 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGA-----T-GCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1281529 TTTTCCAGTCCTCAAAGAGCAGGATGTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1281584 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1281639 TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * * * **
1281700 CATTTCAGTCCCCAAAAAGCATGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
**
1281755 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
*
1281810 CCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * ** *
1281871 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAACGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
**
1281926 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
1281981 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
1282036 CCTTTCAGTCCTTAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1282091 CTTTTTAGTCCTCAAAGAGCAGGAT
1 -TTTTCAGTCCTCAAAGAGCAGGAT
1282116 ACACTTTATT
Statistics
Matches: 678, Mismatches: 49, Indels: 85
0.83 0.06 0.10
Matches are distributed among these distances:
54 8 0.01
55 389 0.57
56 17 0.03
59 19 0.03
60 101 0.15
61 130 0.19
62 3 0.00
64 5 0.01
65 5 0.01
66 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1281669 original size:27 final size:27
Alignment explanation
Indices: 1281584--1281669 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1281574 GTTGGTGGCA
1281584 TTTTCCAGTCCTCAAAGAGCAGGATGC
1 TTTTCCAGTCCTCAAAGAGCAGGATGC
* * * * * **
1281611 CTTTCAAAGCCCACACA-AGTTGG-TGGC
1 TTTTC-CAGTCCTCAAAGAGCAGGAT-GC
1281638 ATTTTCCAGTCCTCAAAGAGCAGGATGC
1 -TTTTCCAGTCCTCAAAGAGCAGGATGC
1281666 TTTT
1 TTTT
1281670 TCTTTTCAAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 17 0.43
29 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (27 bp):
TTTTCCAGTCCTCAAAGAGCAGGATGC
Found at i:1281738 original size:171 final size:171
Alignment explanation
Indices: 1281294--1282114 Score: 1146
Period size: 171 Copynumber: 4.8 Consensus size: 171
1281284 TCCGCTTTTT
*
1281294 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
1 AGTCCTCAAAGAGCAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
** *
1281357 CCTCAAAGAGCAGGATGTTTTTTCATTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
65 CCTCAAAGAGCAGGA------CACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
*
1281422 AAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
124 AAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
1281474 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGT
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
***
1281538 CCTCAAAGAGCAGGATGTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
65 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
** *
1281603 CAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
130 CAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
1281645 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACATTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * *
1281710 CCCAAAAAGCATGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
66 CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
1281775 AGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
131 AGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1281816 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* *
1281881 CCCAAAGAGCAGGACACCTTTCAACGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
66 CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
1281946 AGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
131 AGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1281987 AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * * * *
1282046 CTTAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAG
66 CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAG
1282110 CAGGA
130 CAGGA
1282115 TACACTTTAT
Statistics
Matches: 592, Mismatches: 39, Indels: 35
0.89 0.06 0.05
Matches are distributed among these distances:
165 94 0.16
166 5 0.01
169 2 0.00
170 25 0.04
171 332 0.56
172 9 0.02
175 55 0.09
179 7 0.01
180 44 0.07
181 19 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (171 bp):
AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
AGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:1281793 original size:226 final size:224
Alignment explanation
Indices: 1281320--1282115 Score: 1024
Period size: 226 Copynumber: 3.5 Consensus size: 224
1281310 GATGCCTTTT
* *
1281320 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGTTTTTTCATT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG------CCTT
*
1281384 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-A
60 TCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGATG-CTTTTCTTTTCA
* *
1281447 AAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCC
123 AAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGA------CACCTTTCAAAGCC
*
1281512 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
182 CACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
* *
1281555 TCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAA
1281619 GCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
65 GCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGATGC-TTTTCTTTTCAAAGCC
* * * *
1281683 CACACAAGTTAGTGGCACATTTCAGTCCCCAAAAAGCATGACACCTTTCAAAGCCCACACAAGTT
128 CACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTT
*
1281748 GGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
192 GGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
1281781 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTT
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGC-----C-T
* * * *
1281845 TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGA--C---ACCTTTCAA
59 TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTTCTTTTCAA
* *
1281905 CGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACAC
124 AGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACAC
*
1281969 AAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACG
187 AAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACG
* * *
1282007 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGTAGGACGCCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAG
* *
1282072 CCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGAT
66 CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAT
1282116 ACACTTTATT
Statistics
Matches: 508, Mismatches: 34, Indels: 52
0.86 0.06 0.09
Matches are distributed among these distances:
220 47 0.09
221 1 0.00
225 5 0.01
226 241 0.47
227 10 0.02
229 1 0.00
230 63 0.12
231 24 0.05
232 63 0.12
233 3 0.01
235 29 0.06
236 21 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (224 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAG
CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTTCTTTTCAAAGCCCAC
ACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTG
GCATTTTCCAGTCCTCAAAGAGCAGGACG
Found at i:1282983 original size:19 final size:19
Alignment explanation
Indices: 1282959--1283021 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
1282949 ATTCGGTAAA
1282959 TGTATCGATACATAAGTAT
1 TGTATCGATACATAAGTAT
1282978 TGTATCGATAC---A--A-
1 TGTATCGATACATAAGTAT
*
1282991 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTAT
1283010 TGTATCGATACA
1 TGTATCGATACA
1283022 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
19 23 0.62
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTAT
Found at i:1282996 original size:13 final size:13
Alignment explanation
Indices: 1282978--1283002 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1282968 ACATAAGTAT
1282978 TGTATCGATACAA
1 TGTATCGATACAA
1282991 TGTATCGATACA
1 TGTATCGATACA
1283003 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1282998 original size:32 final size:32
Alignment explanation
Indices: 1282957--1283029 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1282947 ACATTCGGTA
1282957 AATGTATCGATACATAAGTATTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
*
1282989 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
1283021 AATGTATCG
1 AATGTATCG
1283030 CTAGGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTATTGTATCGATAC
Found at i:1283097 original size:21 final size:21
Alignment explanation
Indices: 1283053--1283109 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
1283043 GCTAAGGAAA
*
1283053 TGTATCGATACAT-TTTTCTG
1 TGTATCGATACATCTATTCTG
* *
1283073 TGTATTGATACATCTATTCTT
1 TGTATCGATACATCTATTCTG
*
1283094 TGTATCGCTACATCTA
1 TGTATCGATACATCTA
1283110 GGAAGTTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.47
Consensus pattern (21 bp):
TGTATCGATACATCTATTCTG
Found at i:1285512 original size:52 final size:52
Alignment explanation
Indices: 1285454--1286101 Score: 341
Period size: 52 Copynumber: 12.4 Consensus size: 52
1285444 TCAATTGTTC
* *
1285454 ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCTATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
* * * * *
1285506 TTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCT
* * * ***** * * * *
1285558 ACAATCGAGGATACTCCAACCTC-GTTATCTCATCGGGGATACTCCAACCCCGTTACCT
1 ATAATCGGGGATACTCCAACCCCGGTT-T-T-ATTTTCAAAACACCAA----TTTTCCT
** * ** * ***
1285616 CCAA--GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGA-TTT-CT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
* * *
1285664 AATAATCGGAGATACTCTAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCC-
1 -ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCT
* *
1285716 ACAATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
* * * * * *
1285768 TTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAACAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCT
* * * * *
1285820 ACAATCGAGGATACTCCAACCTC-GTTATCTCATCGGGGATACTTC--AAC-CCCA-TTACCT
1 ATAATCGGGGATACTCCAACCCCGGTT-T-T-AT------T--TTCAAAACACCAATTTTCCT
*** * ** * ***
1285878 CCGA--GGGGATACTCCAA-CCCGGCTTTATTCCCAAAATATTGA-TTT-CT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
*
1285925 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCC-
1 -ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCT
* *
1285977 ACAATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
* * * * *
1286029 TTAATCGGGGATACTCCAACTCCGATTTTATTTTTAAAAACACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGGTTTTA-TTTTCAAAACACCAATTTTCCT
* *
1286081 ACAATCGAGGATACTCCAACC
1 ATAATCGGGGATACTCCAACC
1286102 TCGTTATTTC
Statistics
Matches: 445, Mismatches: 106, Indels: 90
0.69 0.17 0.14
Matches are distributed among these distances:
45 1 0.00
47 5 0.01
48 6 0.01
49 4 0.01
50 17 0.04
51 132 0.30
52 155 0.35
53 60 0.13
54 10 0.02
55 4 0.01
56 30 0.07
57 8 0.02
58 7 0.02
59 3 0.01
60 1 0.00
62 2 0.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (52 bp):
ATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCT
Found at i:1285597 original size:28 final size:29
Alignment explanation
Indices: 1285561--1285637 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
1285551 ATTTTTCACA
* * *
1285561 ATCGAGGATACTCCAACCTCGTTATCT-C
1 ATCGGGGATACTCCAACCCCGTTACCTCC
1285589 ATCGGGGATACTCCAACCCCGTTACCTCC
1 ATCGGGGATACTCCAACCCCGTTACCTCC
*
1285618 A-AGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1285638 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTACCTCC
Found at i:1285722 original size:51 final size:51
Alignment explanation
Indices: 1285667--1286101 Score: 321
Period size: 51 Copynumber: 8.4 Consensus size: 51
1285657 GATTTCTAAT
* * *
1285667 AATCGGAGATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCAC
* **
1285718 AATCGGGGATACTCCAACCCCGGTTTTGTTT-TCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCC-AC
* * * * *
1285770 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAACAATTTTTCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACCAATTTTCCAC
* * * ** * * *
1285822 AATCGAGGATACTCCAACCTC-GTTATCTCATCGGGGATACTTCAAC-CCCA-TTACCTCC
1 AATCGGGGATACTCCAACCCCGGTT-T-T-AT------TTCTAAAACACCAATTTTCC-AC
* * * * * *** *
1285880 GA--GGGGATACTCCAA-CCCGGCTTTATTCCCAAAATATTGA-TTTCTCAT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTC-CAC
*
1285928 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCAC
* **
1285979 AATCGGGGATACTCCAACCCCGGTTTTGTTT-TCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCC-AC
* * * *
1286031 AATCGGGGATACTCCAACTCCGATTTTATTTTTAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCCAC
*
1286083 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
1286102 TCGTTATTTC
Statistics
Matches: 297, Mismatches: 63, Indels: 47
0.73 0.15 0.12
Matches are distributed among these distances:
47 4 0.01
48 5 0.02
49 1 0.00
50 15 0.05
51 111 0.37
52 96 0.32
53 33 0.11
54 3 0.01
55 3 0.01
56 14 0.05
57 3 0.01
58 4 0.01
59 4 0.01
60 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCAC
Found at i:1285859 original size:28 final size:28
Alignment explanation
Indices: 1285823--1285897 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 28
1285813 ATTTTTCACA
* * * *
1285823 ATCGAGGATACTCCAACCTCGTTATCTC
1 ATCGGGGATACTCCAACCCCATTACCTC
*
1285851 ATCGGGGATACTTCAACCCCATTACCTC
1 ATCGGGGATACTCCAACCCCATTACCTC
***
1285879 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
1285898 GGCTTTATTC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTACCTC
Found at i:1286031 original size:261 final size:262
Alignment explanation
Indices: 1285456--1286210 Score: 1368
Period size: 261 Copynumber: 2.9 Consensus size: 262
1285446 AATTGTTCAT
* * *
1285456 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCTATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1285521 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
*
1285586 CTCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGGCTTTATTCCCAA
131 CTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAA
* * *
1285651 AATATTGATTTCTAATAATCGGAGATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
196 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
1285716 AC
261 AC
1285718 AATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
*
1285783 CCAACTCCGATTTTATTTCCAAAAACAACAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
* *
1285848 CTCATCGGGGATACTTCAACCCCATTACCTCCGAGGGGATACTCCAA-CCCGGCTTTATTCCCAA
131 CTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAA
1285912 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
196 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
1285977 AC
261 AC
1285979 AATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
**
1286044 CCAACTCCGATTTTATTTTTAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
* *
1286109 TTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
131 CTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAA
*
1286174 AATATTGATTTCTCATAATTGGGGATACTCCAACCCC
196 AATATTGATTTCTCATAATCGGGGATACTCCAACCCC
1286211 ATTATTTCTA
Statistics
Matches: 474, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
261 252 0.53
262 222 0.47
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (262 bp):
AATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
CTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAA
AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
AC
Found at i:1286232 original size:79 final size:80
Alignment explanation
Indices: 1286114--1286318 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 80
1286104 GTTATTTCAT
** ** *
1286114 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTT-TATTTCCAAAAT-
1 CGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGATTCTATTTCC-AAATC
* * *
1286177 ATTGATTTCTCATAAT
65 ATCGATTTCTCACAAC
* * * * * * *
1286193 TGGGGATACTCCAACCCCATTATTTCTAAGGGAACACTCCAATCCC-GATTCTATTTTCTAATCA
1 CGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGATTCTATTTCCAAATCA
*
1286257 TCGATTTTTCACAAC
66 TCGATTTCTCACAAC
*
1286272 CGGGGATACTTCAACCCCGTTATTT-TCAAGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTCT-AAGGGGATACTCCAACCCCG
1286319 TTATTATCTC
Statistics
Matches: 100, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
78 7 0.07
79 93 0.93
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (80 bp):
CGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGATTCTATTTCCAAATCA
TCGATTTCTCACAAC
Found at i:1293780 original size:168 final size:165
Alignment explanation
Indices: 1293553--1294025 Score: 486
Period size: 168 Copynumber: 2.8 Consensus size: 165
1293543 AAATTTCGAG
* * *
1293553 GTTTTCTTCTCCGTAAAATTTTTTGGAAGGA-TTTTCATGGGATTAAAATTTTCAAAATTCATTA
1 GTTTTCTTCTCCGT-AAATTTTTTGGAAGGATTTTTC-TAGGTTTAAAATTTTCAAAATTCATCA
* *
1293617 AATATTATTATTTAATTTATATTAAATCATTTTTCAAAAACTCCTTAATTTTCATGAGTTTTTGA
64 AATATTATTATTTAATTCATATTAAATCATTTTT-AAAAACTCCTTCATTTTCATGAGTTTTTGA
1293682 ATTTTTTCCTTAAAATTTCTCGGTTTT-CAAAATATAG-A
128 ATTTTTTCCTTAAAATTT-TCGGTTTTCCAAAATA-AGAA
* *
1293720 GTTTTCTTCTCCATAAATTTATTTTGGAAGGATTTTTCTAGGTTTAAAATTTTTAAAATTCATCA
1 GTTTTCTTCTCCGTAAA-TT-TTTTGGAAGGATTTTTCTAGGTTTAAAATTTTCAAAATTCATCA
* * * * * * *
1293785 AATTTTATGATTTAACTCAAATTAAATCAATTTTAAAAATCTCCTTCATTTTCCTAAGTTTTTGA
64 AATATTATTATTTAATTCATATTAAATCATTTTTAAAAA-CTCCTTCATTTTCATGAGTTTTTGA
* * ** * *
1293850 ATTTTTTTCTTGAAATTTTCTTTTTTCCGAAATACGAA
128 ATTTTTTCCTTAAAATTTTCGGTTTTCCAAAATAAGAA
* ** * ** * ** * *
1293888 ATTTTCTAT-TTTGTAAATGTTTTCCAAGGGATTTTTCTTGGTTTTTAATTTTGAAAATTTATCA
1 GTTTTCT-TCTCCGTAAATTTTTTGGAA-GGATTTTTCTAGGTTTAAAATTTTCAAAATTCATCA
* ** * *
1293952 AATATTATTATTTAATTCATATTAAATCATTTTTGAAAAATTAATTCATCTTCATGAATTATTTG
64 AATATTATTATTTAATTCATATTAAATCATTTTT-AAAAACTCCTTCATTTTCATGAGTT-TTTG
1294017 AATTTTTTC
127 AATTTTTTC
1294026 TTGTAATTCT
Statistics
Matches: 251, Mismatches: 45, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
166 9 0.04
167 101 0.40
168 135 0.54
169 6 0.02
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (165 bp):
GTTTTCTTCTCCGTAAATTTTTTGGAAGGATTTTTCTAGGTTTAAAATTTTCAAAATTCATCAAA
TATTATTATTTAATTCATATTAAATCATTTTTAAAAACTCCTTCATTTTCATGAGTTTTTGAATT
TTTTCCTTAAAATTTTCGGTTTTCCAAAATAAGAA
Found at i:1295157 original size:11 final size:12
Alignment explanation
Indices: 1295141--1295169 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1295131 CTAAGAGATC
1295141 TTTTTGCTG-TG
1 TTTTTGCTGCTG
1295152 TTTTTGCTGCTG
1 TTTTTGCTGCTG
1295164 TTTTTG
1 TTTTTG
1295170 AGTTGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.00, C:0.10, G:0.24, T:0.66
Consensus pattern (12 bp):
TTTTTGCTGCTG
Found at i:1297485 original size:41 final size:40
Alignment explanation
Indices: 1297428--1297671 Score: 204
Period size: 41 Copynumber: 6.0 Consensus size: 40
1297418 ACATTATCAA
* * *
1297428 TTTTGCCTTGGTCAACCCCTTTAACATGTTGGCTTTATTGG
1 TTTTGCCTTGGCCAACCCCTCTAA-TTGTTGGCTTTATTGG
*
1297469 TTTTGCCTTGGCCAACCCCTCTAATTGGTTGAC-TTATTGG
1 TTTTGCCTTGGCCAACCCCTCTAATT-GTTGGCTTTATTGG
* * * * *
1297509 TTTTGCCTGGGTCAACCCCTCTAACATGTTGGCTATATTAG
1 TTTTGCCTTGGCCAACCCCTCTAA-TTGTTGGCTTTATTGG
* *
1297550 TTTTGCAC-TGGCCAACCCCTCTAATTGGTTGACTTTATCGG
1 TTTTGC-CTTGGCCAACCCCTCTAATT-GTTGGCTTTATTGG
** * * *
1297591 TTTTATCTTGGCTAACCCCTCTAATTTGTTGGTTTTATGGG
1 TTTTGCCTTGGCCAACCCCTCTAA-TTGTTGGCTTTATTGG
* * * *** *
1297632 TTTTACTTTGGCTAAGATCTCTAATTAGTTGACTTTATTG
1 TTTTGCCTTGGCCAACCCCTCTAATT-GTTGGCTTTATTG
1297672 ACTTTACCCC
Statistics
Matches: 164, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
40 39 0.24
41 122 0.74
42 3 0.02
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (40 bp):
TTTTGCCTTGGCCAACCCCTCTAATTGTTGGCTTTATTGG
Found at i:1297849 original size:82 final size:80
Alignment explanation
Indices: 1297682--1297859 Score: 177
Period size: 82 Copynumber: 2.2 Consensus size: 80
1297672 ACTTTACCCC
* *
1297682 AGTCAACCCCTTAAATCTAT-TTGCTTT-ATTAGTTTTCTCTAGCCAACCCCTCTAATGGTTGAC
1 AGTCAACCCCTCAAAT-T-TGTTGGTTTAATTAGTTTTCTCTAGCCAACCCCTCTAATGGTTGAC
1297745 TTTATCAATTCCGCCAT
64 TTTATCAATTCCGCCAT
* * *
1297762 GGTCAATCCCTCAAATTTGTTGGTTTAATTAG-TTTCTTCTAAGCCAACCTCT-TAAATTGGTTG
1 AGTCAACCCCTCAAATTTGTTGGTTTAATTAGTTTTC-TCT-AGCCAACCCCTCT-AA-TGGTTG
* **
1297825 ACTTTATCAGTTTTGGCC-T
62 ACTTTATCA-ATTCCGCCAT
*
1297844 AGTCAACCCCTTAAAT
1 AGTCAACCCCTCAAAT
1297860 CTATTGGCTT
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
78 1 0.01
79 11 0.14
80 22 0.28
81 12 0.15
82 29 0.36
83 5 0.06
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (80 bp):
AGTCAACCCCTCAAATTTGTTGGTTTAATTAGTTTTCTCTAGCCAACCCCTCTAATGGTTGACTT
TATCAATTCCGCCAT
Found at i:1298051 original size:80 final size:82
Alignment explanation
Indices: 1297967--1298117 Score: 220
Period size: 80 Copynumber: 1.9 Consensus size: 82
1297957 ACTTATCCTA
* *
1297967 GTCAACCCCTTAAATCTGTTGGCTTTATTAGTTT-TCCCT-AGCCAACCCCTCT-AA-TGGTTGA
1 GTCAACCCCTCAAATCTGTTGGCTTAATTAGTTTCT-CCTAAGCCAACCCCT-TAAATTGGTTGA
1298028 CTTTATCGGTTTCACCATG
64 CTTTATCGGTTTCACCATG
* *
1298047 GTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACT
1 GTCAACCCCTCAAATCTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACT
1298112 TTATCG
66 TTATCG
1298118 ATTTTGGCCT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
80 34 0.54
81 14 0.22
82 15 0.24
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (82 bp):
GTCAACCCCTCAAATCTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACT
TTATCGGTTTCACCATG
Found at i:1298059 original size:284 final size:285
Alignment explanation
Indices: 1297619--1298191 Score: 916
Period size: 284 Copynumber: 2.0 Consensus size: 285
1297609 CTCTAATTTG
* *
1297619 TTGGTTTTATGGGTTTTACTTTGGCTAAGATCTCTAATTAGTTGACTTTATTGACTTTACCCCAG
1 TTGGTTTTATCGGTTTTACTTTGGCTAACATCTCTAATTAGTTGACTTTATTGACTTTACCCCAG
* *
1297684 TCAACCCCTTAAATCTATTTGCTTTATTAGTTTTCTCTAGCCAACCCCTCTAATGGTTGACTTTA
66 TCAACCCCTTAAATCTATTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTA
* * * *
1297749 TCAATTCCGCCATGGTCAATCCCTCAAATTTGTTGGTTTAATTAGTTTCTTCTAAGCCAACCTCT
131 TCAATTCCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCT
*
1297814 TAAATTGGTTGACTTTATC-AGTTTTGGCCTAGTCAACCCCTTAAATCTATTGGCTTTACCAATT
196 TAAATTGGTTGACTTTATCGA-TTTTGGCCTAGTCAACCCCTCAAATCTATTGGCTTTACCAATT
**
1297878 TCGCCTTGGCCAATGCCTCTAACCTA
260 TCGCCTTGGCCAACACCTCTAACCTA
* * * *
1297904 TTGGTTTTATCTGTTTTACTTTGGCTAACTTCTCTAATTAGTTGACTTTATTGAC-TTATCCTAG
1 TTGGTTTTATCGGTTTTACTTTGGCTAACATCTCTAATTAGTTGACTTTATTGACTTTACCCCAG
*
1297968 TCAACCCCTTAAATCTGTTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTA
66 TCAACCCCTTAAATCTATTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTA
** *
1298033 TCGGTTTCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCT
131 TCAATTCCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCT
* * *
1298098 TAAATTGGTTGACTTTATCGATTTTGGCCTAGTTAACTCCTCAAATCTATTGGCTTTACTAATTT
196 TAAATTGGTTGACTTTATCGATTTTGGCCTAGTCAACCCCTCAAATCTATTGGCTTTACCAATTT
*
1298163 CGCCTTGGCCAACACCTTTAACCTA
261 CGCCTTGGCCAACACCTCTAACCTA
1298188 TTGG
1 TTGG
1298192 CTTTGTCAGT
Statistics
Matches: 264, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
284 212 0.80
285 52 0.20
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (285 bp):
TTGGTTTTATCGGTTTTACTTTGGCTAACATCTCTAATTAGTTGACTTTATTGACTTTACCCCAG
TCAACCCCTTAAATCTATTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGACTTTA
TCAATTCCACCATGGTCAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCT
TAAATTGGTTGACTTTATCGATTTTGGCCTAGTCAACCCCTCAAATCTATTGGCTTTACCAATTT
CGCCTTGGCCAACACCTCTAACCTA
Found at i:1298103 original size:41 final size:41
Alignment explanation
Indices: 1297969--1298115 Score: 117
Period size: 41 Copynumber: 3.6 Consensus size: 41
1297959 TTATCCTAGT
1297969 CAACCCCTTAAATCT-GTTGGCTTTATTAGTTT-TCCCT-AGC
1 CAACCCCTTAAAT-TGGTTGGCTTTATTAGTTTCT-CCTAAGC
* ** * * *
1298009 CAACCCCTCT-AA-TGGTTGACTTTATCGGTTTCACC-ATGGT
1 CAACCCCT-TAAATTGGTTGGCTTTATTAGTTTCTCCTA-AGC
* * * *
1298049 CAATCCCTCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGC
1 CAACCCCTTAAATTGGTTGGCTTTATTAGTTTCTCCTAAGC
*
1298090 CAACCCCTTAAATTGGTTGACTTTAT
1 CAACCCCTTAAATTGGTTGGCTTTAT
1298116 CGATTTTGGC
Statistics
Matches: 78, Mismatches: 21, Indels: 15
0.68 0.18 0.13
Matches are distributed among these distances:
38 1 0.01
39 16 0.21
40 20 0.26
41 40 0.51
42 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (41 bp):
CAACCCCTTAAATTGGTTGGCTTTATTAGTTTCTCCTAAGC
Found at i:1298140 original size:82 final size:79
Alignment explanation
Indices: 1297963--1298153 Score: 208
Period size: 82 Copynumber: 2.4 Consensus size: 79
1297953 ATTGACTTAT
* * *
1297963 CCTAGTCAACCCCTTAAATCTGTTGGCTTTATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGA
1 CCTAGTCAACTCCTCAAATCTGTTGGCTTAATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGA
1298028 CTTTATCGGTTTCA
66 CTTTATCGGTTTCA
* *
1298042 CCATGGTCAA-TCCCTCAAATTTGTTGGCTTAATTAG-TTTCTCCTAAGCCAACCCCT-TAAATT
1 CC-TAGTCAACT-CCTCAAATCTGTTGGCTTAATTAGTTTTC-CCT-AGCCAACCCCTCT-AA-T
* **
1298104 GGTTGACTTTATCGATTTTGG
60 GGTTGACTTTATCG-GTTTCA
* *
1298125 CCTAGTTAACTCCTCAAATCTATTGGCTT
1 CCTAGTCAACTCCTCAAATCTGTTGGCTT
1298154 TACTAATTTC
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
79 6 0.07
80 31 0.34
81 13 0.14
82 36 0.39
83 6 0.07
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (79 bp):
CCTAGTCAACTCCTCAAATCTGTTGGCTTAATTAGTTTTCCCTAGCCAACCCCTCTAATGGTTGA
CTTTATCGGTTTCA
Found at i:1298349 original size:165 final size:165
Alignment explanation
Indices: 1298056--1298360 Score: 366
Period size: 165 Copynumber: 1.8 Consensus size: 165
1298046 GGTCAATCCC
* * * *
1298056 TCAAATTTGTTGGCTTAATTAGTTTCTCCTAAGCCAACCCCTTAAATTGGTTGACTTTATCGATT
1 TCAAATCTGTTGGCATAATTAGTTTCACCTAAGCCAACCCCTTAAATTAGTTGACTTTATCGATT
* * * *
1298121 TTGGCCTAGTTAACTCCTCAAATCTATTGGCTTTACTAATTTCGCCTTGGCCAACACCTTTAACC
66 TTGGCCTAGTCAACTCCTCAAACCTATTGGCTTTACTAATTTCGCCTTAGCCAACACCTTTAACA
1298186 TATTGGCTTTGTCAGTCTCGTCTTGGCCAACTCCT
131 TATTGGCTTTGTCAGTCTCGTCTTGGCCAACTCCT
* * * *
1298221 TCAAATCTGTTGGCATAATTGGTTTCACTTTAGCCAAGCCCTTAAATTTAGTTGACTTTATCGAT
1 TCAAATCTGTTGGCATAATTAGTTTCACCTAAGCCAACCCCTTAAA-TTAGTTGACTTTATCGAT
* * * * * * *
1298286 TTTGTCCT-GATCAAC-CTTCAAACCTATTGGTTTTA-TCGATTTTGCTTTAGTCAAC-CTCTTT
65 TTTGGCCTAG-TCAACTCCTCAAACCTATTGGCTTTACT-AATTTCGCCTTAGCCAACAC-CTTT
*
1298347 AACATTTTGGCTTT
127 AACATATTGGCTTT
1298361 ATTAGTTTCA
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
164 2 0.02
165 86 0.74
166 28 0.24
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (165 bp):
TCAAATCTGTTGGCATAATTAGTTTCACCTAAGCCAACCCCTTAAATTAGTTGACTTTATCGATT
TTGGCCTAGTCAACTCCTCAAACCTATTGGCTTTACTAATTTCGCCTTAGCCAACACCTTTAACA
TATTGGCTTTGTCAGTCTCGTCTTGGCCAACTCCT
Found at i:1300050 original size:74 final size:74
Alignment explanation
Indices: 1299929--1300076 Score: 244
Period size: 74 Copynumber: 2.0 Consensus size: 74
1299919 ACACTAACGG
*
1299929 CTACTTGTCTTTGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATGA-AACAATATGGT
1 CTACTTGTCTTCGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTAT-ATAACAATATGGT
1299993 TTCATTTAAT
65 TTCATTTAAT
* * *
1300003 CTACTTGTCTTCGGATTCGGTCTCGACATTTTAGCATACTATGTTGTTTATATAACAATATGGTT
1 CTACTTGTCTTCGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATATAACAATATGGTT
1300068 TCATTTAAT
66 TCATTTAAT
1300077 TTATTATTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
73 1 0.01
74 68 0.99
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (74 bp):
CTACTTGTCTTCGGATTCGATCTCGACATTTAAGCATACTATCTTGTTTATATAACAATATGGTT
TCATTTAAT
Found at i:1300971 original size:21 final size:23
Alignment explanation
Indices: 1300947--1300990 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1300937 TGCTATTATC
*
1300947 TATAT-AATATGTTCCTA-AGTA
1 TATATAAATATCTTCCTATAGTA
1300968 TATATAAATATCTTCCTATAGTA
1 TATATAAATATCTTCCTATAGTA
1300991 ATGTCCTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (23 bp):
TATATAAATATCTTCCTATAGTA
Found at i:1308359 original size:164 final size:165
Alignment explanation
Indices: 1308049--1308347 Score: 458
Period size: 164 Copynumber: 1.8 Consensus size: 165
1308039 AAATATTAAT
*
1308049 ATTTAACTCATAGTAAATCATTTTAAAAAAATTTATTTATTTTCATGAGTTTTTCATTTTTTCCT
1 ATTTAACTCATAGTAAATCATTTTAAAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTCCT
* * * *
1308114 TAAAATTCTCCTATTTTGAAAAATGAAGTTTTCTATTCCATAATTATTTTCGGGGGGCATTTTTC
66 TAAAATTCTCCTATCTTAAAAAATGAAGTTTTCTATTCCATAAATATTTTCGAGGGGCATTTTTC
*
1308179 ACGGTCTAAAATTTTAATATTCATCAAATATCATC
131 ACAGTCTAAAATTTTAATATTCATCAAATATCATC
* * **
1308214 ATTTAATTCATAG-AAATTATTTTTGAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTCCT
1 ATTTAACTCATAGTAAATCATTTTAAAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTCCT
* *
1308278 TAAAATTCTCCTATCCTTAAAAAATGAAGTTTTCTATTTCATAAATGTTTTCGAGGGG-ATTTTT
66 TAAAATTCTCCTAT-CTTAAAAAATGAAGTTTTCTATTCCATAAATATTTTCGAGGGGCATTTTT
*
1308342 CTCAGT
130 CACAGT
1308348 TGAAGATTTT
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
164 71 0.59
165 49 0.41
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (165 bp):
ATTTAACTCATAGTAAATCATTTTAAAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTCCT
TAAAATTCTCCTATCTTAAAAAATGAAGTTTTCTATTCCATAAATATTTTCGAGGGGCATTTTTC
ACAGTCTAAAATTTTAATATTCATCAAATATCATC
Found at i:1310968 original size:77 final size:72
Alignment explanation
Indices: 1310868--1311225 Score: 340
Period size: 73 Copynumber: 4.9 Consensus size: 72
1310858 GGGATAAAAA
*
1310868 GTGCCACCAGCTTGTGTGGGCTTTTAAAAAAGAAAAAGAAAAAGCATCCTACTTTTTGAGGACTA
1 GTGCCACCAGCTTGTGT-GGCTTTT-AAAAAG-AAAA-AAAAA-CATCCTACTCTTTGAGGACTA
1310933 AAAGGAAAAATG
61 AAAGGAAAAATG
* *
1310945 GTGCCACTAGCTTGTGTGAGCTTTT-------AAAAAAAACATCCTGCTCTTTGAGGACTAAAAG
1 GTGCCACCAGCTTGTGTG-GCTTTTAAAAAGAAAAAAAAACATCCTACTCTTTGAGGACTAAAAG
*
1311003 AATAAAAT-
65 GA-AAAATG
* * *
1311011 GTGCCACCAGCTTGTATGGTCTTTTAAAAA-AGAAAAAAAACATCCTATTCTTTGAGGACAAAAA
1 GTGCCACCAGCTTGTGTGG-CTTTTAAAAAGA-AAAAAAAACATCCTACTCTTTGAGGACTAAAA
*
1311075 GGAAAAAAG
64 GGAAAAATG
* * * * *
1311084 GTGCCATCAACTTGGGTGGC-TTTAAAAAGAAAAAGGAAATGCATCCTACTCTTTAAGGACTAAA
1 GTGCCACCAGCTTGTGTGGCTTTTAAAAAGAAAAA--AAA-ACATCCTACTCTTTGAGGACT-AA
* *
1311148 AAGATAAAAAGG
62 AAG-GAAAAATG
* * * *
1311160 GTGCCACCAACTTGTGTAGGCTTTGAAAAAGAAAAAAAAACATCATTCTCTTTGAGGACTAAAAG
1 GTGCCACCAGCTTGTGT-GGCTTTTAAAAAGAAAAAAAAACATCCTACTCTTTGAGGACTAAAAG
1311225 G
65 G
1311226 TGCTACTAGC
Statistics
Matches: 233, Mismatches: 29, Indels: 42
0.77 0.10 0.14
Matches are distributed among these distances:
65 1 0.00
66 45 0.19
67 10 0.04
68 3 0.01
71 12 0.05
72 6 0.03
73 49 0.21
74 22 0.09
75 22 0.09
76 25 0.11
77 25 0.11
78 13 0.06
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (72 bp):
GTGCCACCAGCTTGTGTGGCTTTTAAAAAGAAAAAAAAACATCCTACTCTTTGAGGACTAAAAGG
AAAAATG
Found at i:1310976 original size:66 final size:66
Alignment explanation
Indices: 1310906--1311041 Score: 186
Period size: 66 Copynumber: 2.1 Consensus size: 66
1310896 AAAGAAAAAG
* * * * *
1310906 AAAAAGCATCCTACTTTTTGAGGACTAAAAGGA-AAAATGGTGCCACTAGCTTGTGTGAG-CTTT
1 AAAAAACATCCTACTCTTTGAGGACTAAAAGAATAAAAT-GTGCCACCAGCTTGTATG-GTCTTT
1310969 TAA
64 TAA
*
1310972 AAAAAACATCCTGCTCTTTGAGGACTAAAAGAATAAAATGTGCCACCAGCTTGTATGGTCTTTTA
1 AAAAAACATCCTACTCTTTGAGGACTAAAAGAATAAAATGTGCCACCAGCTTGTATGGTCTTTTA
1311037 A
66 A
1311038 AAAA
1 AAAA
1311042 GAAAAAAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 1 0.02
66 56 0.90
67 5 0.08
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (66 bp):
AAAAAACATCCTACTCTTTGAGGACTAAAAGAATAAAATGTGCCACCAGCTTGTATGGTCTTTTA
A
Found at i:1311280 original size:62 final size:62
Alignment explanation
Indices: 1311207--1311375 Score: 257
Period size: 62 Copynumber: 2.7 Consensus size: 62
1311197 AAACATCATT
* * * ** *
1311207 CTCTTTGAGGACTAAAAGGTGCTACTAGCTTGTGTGGGTTTTAAAAAGAACAAGGTGTCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGAGTTTTAAAAAGAAAAAGGCATCCTA
1311269 CTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGAGTTTTAAAAAGAAAAAGGCATCCTA
1 CTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGAGTTTTAAAAAGAAAAAGGCATCCTA
* * *
1311331 TTCTTTGAGGACTAAAAGGTGCCACTAGCTTTTGTGAGCTTTAAA
1 CTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGAGTTTTAAA
1311376 TGAAAAGAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 98 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (62 bp):
CTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGAGTTTTAAAAAGAAAAAGGCATCCTA
Found at i:1311887 original size:20 final size:20
Alignment explanation
Indices: 1311840--1311893 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 20
1311830 TTTTCACAAT
1311840 TTGTATCGATACATTGTTAA
1 TTGTATCGATACATTGTTAA
*
1311860 TT-TATCGATACATTGTTCA
1 TTGTATCGATACATTGTTAA
1311879 TTGTATCGATACATT
1 TTGTATCGATACATT
1311894 CTGGGTTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTGTATCGATACATTGTTAA
Found at i:1314415 original size:80 final size:79
Alignment explanation
Indices: 1314205--1314439 Score: 283
Period size: 79 Copynumber: 3.0 Consensus size: 79
1314195 TATTTTTGTT
* * * *
1314205 AAACATCAATTTTTCATAATCGGGGATACTCTAATCTCGTTATTTTGGCGGGGATACTCCAACCC
1 AAACATCAATTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTCGAGGGGATACTCCAACCC
*** *
1314270 CGGCCTTATTTTTA
66 CGATTTTATTTTCA
* * * *
1314284 AAGCATCGATTTTTCACAATCGAGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACCC
1 AAACATCAATTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTCGAGGGGATACTCCAACCC
**
1314349 TAATTTTATTTTCA
66 CGATTTTATTTTCA
* * * *
1314363 AAACACCAATTTTTTCACAATCGGGGATATTCCAACCTCGTTA-TTTCTGAGGGGATACTTCAAC
1 AAACATCAA-TTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTC-GAGGGGATACTCCAAC
1314427 CCCGATTTTATTT
64 CCCGATTTTATTT
1314440 CCAGAATACC
Statistics
Matches: 130, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 75 0.58
80 55 0.42
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (79 bp):
AAACATCAATTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTCGAGGGGATACTCCAACCC
CGATTTTATTTTCA
Found at i:1314455 original size:80 final size:79
Alignment explanation
Indices: 1314214--1314473 Score: 265
Period size: 79 Copynumber: 3.3 Consensus size: 79
1314204 TAAACATCAA
* * * * ***
1314214 TTTTTCATAATCGGGGATACTCTAATCTCGTTATTTTGGCGGGGATACTCCAACCCCGGCCTTAT
1 TTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTAT
* *
1314279 TTTTAAAGCATCGA-
66 TTTCAAA-CACCGAT
* * **
1314293 TTTTTCACAATCGAGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACCCTAATTTTAT
1 TTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTAT
*
1314358 TTTCAAAACACCAAT
66 TTTC-AAACACCGAT
* * *
1314373 TTTTTCACAATCGGGGATATTCCAACCTCGTTA-TTTCTGAGGGGATACTTCAACCCCGATTTTA
1 TTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTC-GAGGGGATACTCCAACCCCGATTTTA
* *
1314437 TTTCCAGAATACCGAT
65 TTTTCA-AACACCGAT
* * *
1314453 TTTCT-ATAATCAGGGATACTC
1 TTTTTCACAATCGGGGATACTC
1314474 CAGTCCCGTT
Statistics
Matches: 149, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
79 79 0.53
80 70 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (79 bp):
TTTTTCACAATCGGGGATACTCTAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTAT
TTTCAAACACCGAT
Found at i:1327078 original size:61 final size:61
Alignment explanation
Indices: 1326588--1327091 Score: 524
Period size: 61 Copynumber: 8.5 Consensus size: 61
1326578 CCTTTCACCA
* *
1326588 TTTAGTCCTCAAAAAGCAGGACGCC-TTTC-----AAAGCCTACA-ATAGTTGGTGGCA-TT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACA-AGTTGGTGGCACTT
* * *
1326642 TTTCAGTCCTCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACATAAGCTGGTGGCAC-C
1 TTT-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT
* * * * *
1326697 TTCAGTCCTCAAAGAGTAGGATGCCTTTTC-TTTTAAAGCACACATAAGTTGGTGGCA-TT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT
* * *
1326756 TTCTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAC-T
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT
* * * * *
1326817 TTCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT
* * * **
1326878 TTCTAGTCCTCAAAGAGTAGGACACCTTTT-TCTTTTAAAGACCACACAAGTTGGTGGCACCA
1 TT-TAGTCCTCAAAGAGCAGGACGCCTTTTCT-TTTTAAAGCCCACACAAGTTGGTGGCACTT
* * * ** *
1326940 TCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTACAAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT
** *
1327001 TCCAATCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT
* *
1327062 TTTAGTCTTCAAAGAGCAAGACGCCTTTTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTC
1327092 CTTGTCTCTT
Statistics
Matches: 387, Mismatches: 47, Indels: 25
0.84 0.10 0.05
Matches are distributed among these distances:
54 23 0.06
55 50 0.13
56 1 0.00
59 23 0.06
60 79 0.20
61 158 0.41
62 53 0.14
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (61 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTT
Found at i:1327345 original size:44 final size:44
Alignment explanation
Indices: 1327104--1327374 Score: 166
Period size: 41 Copynumber: 6.3 Consensus size: 44
1327094 TGTCTCTTTT
* * * * * *
1327104 GTCCTCAAAGAGTAGGACACATTTCATTTCCTTCTTTTCCCTTTT
1 GTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTTTCC-TTA
* * * * * *
1327149 GTCCTAAAAAAGAAGGATGC-TTTT-TTTTCTTTTTTTT-CTTT
1 GTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTTTCCTTA
* * * * *
1327190 GTCCTCAAAGAGC-GAGAAGCACTTCATTTCCTTCTTTTCCCTTCTA
1 GTCCTCAAAGAGCAG-GACGCATTTTATTTCCTTTTTTTTCC-T-TA
* * *
1327236 GTTCTCAAAGAGCAGGACGCACTTTATTCTCCTTTTTCTT--TTA
1 GTCCTCAAAGAGCAGGACGCATTTTATT-TCCTTTTTTTTCCTTA
* * *
1327279 -TCTTCAAAGGGCAGGATGCATTTTATTTCCTTTTTTTTCCTTA
1 GTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTTTCCTTA
* * * * *
1327322 GTCCTCAAAGATCAGGACCCATTTCA-TT-C-TTCTTTTCTTTA
1 GTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTTTCCTTA
*
1327363 ATCCTCAAAGAG
1 GTCCTCAAAGAG
1327375 TAAGACGCCC
Statistics
Matches: 174, Mismatches: 41, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.01
41 47 0.27
42 26 0.15
43 27 0.16
44 24 0.14
45 16 0.09
46 24 0.14
47 9 0.05
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (44 bp):
GTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTTTCCTTA
Found at i:1333199 original size:19 final size:19
Alignment explanation
Indices: 1333175--1333242 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1333165 AATTCAACAA
1333175 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1333194 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1333209 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
* *
1333226 ATTGTATAGATACATAA
1 TTTGTATCGATACATAA
1333243 TTATCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1333214 original size:13 final size:13
Alignment explanation
Indices: 1333196--1333220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1333186 ACATAAGTTT
1333196 TGTATCGATACAA
1 TGTATCGATACAA
1333209 TGTATCGATACA
1 TGTATCGATACA
1333221 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1333218 original size:32 final size:32
Alignment explanation
Indices: 1333177--1333239 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1333167 TTCAACAATT
* *
1333177 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATAGATACAA
1333209 TGTATCGATACATAAGTATTGTATAGATACA
1 TGTATCGATACATAAGTATTGTATAGATACA
1333240 TAATTATCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATAGATACAA
Found at i:1333847 original size:13 final size:13
Alignment explanation
Indices: 1333823--1333859 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
1333813 AATCCTTTAG
1333823 CAAAAAAGAAAAAA
1 CAAAAAA-AAAAAA
1333837 CAAAAAAAAAAAA
1 CAAAAAAAAAAAA
1333850 CAAAGAAAAA
1 CAAA-AAAAA
1333860 CACTATTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.86, C:0.08, G:0.05, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:1335803 original size:27 final size:28
Alignment explanation
Indices: 1335773--1335848 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
1335763 AATTTTCACA
1335773 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
1335800 ATCGGGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
1335828 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1335849 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:1335948 original size:52 final size:51
Alignment explanation
Indices: 1335667--1336053 Score: 257
Period size: 52 Copynumber: 7.4 Consensus size: 51
1335657 AATTCTCCAC
* * * *
1335667 AATCGGGGATATTCCAACTCCGATTTTATTT-TCAAGACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATTTTTC-AT
* * * *
1335718 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAAATTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTT-C--TAAAACACCAATTTTTCAT
* * ** * * **
1335772 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCTCGTT-AT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC--TAAAACACCAA--TTTTTCAT
* * * * ***
1335825 -TTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCAT
1 AAT-C--GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCAT
* * * * *
1335878 AATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTT-CAT
* *
1335930 AATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATTTTT-C-AT
* * *
1335983 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAATACCAATTTTTCAT
1 AATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACACCAATTTTTCAT
*
1336035 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
1336054 TCGTTATCTC
Statistics
Matches: 263, Mismatches: 53, Indels: 39
0.74 0.15 0.11
Matches are distributed among these distances:
51 67 0.25
52 81 0.31
53 33 0.13
54 53 0.20
55 23 0.09
56 2 0.01
57 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCAT
Found at i:1336046 original size:105 final size:103
Alignment explanation
Indices: 1335833--1336053 Score: 257
Period size: 105 Copynumber: 2.1 Consensus size: 103
1335823 ATTTCCGAGG
* ***
1335833 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCC
* * * *
1335898 TGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGG
66 TGATTTTATTGCAAAAACACCAATTTTTCCACAATCGA
** * *
1335936 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGGGATACTCCAAC
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTT-C-ATAATCGGGGATACTCCAAC
* * *
1336001 TCC-GATTTTATTTTCAAAAATACCAATTTTT-CATAATCGA
64 -CCTGATTTTA-TTGCAAAAACACCAATTTTTCCACAATCGA
1336041 GGATACTCCAACC
1 GGATACTCCAACC
1336054 TCGTTATCTC
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
103 35 0.35
104 1 0.01
105 45 0.45
106 18 0.18
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (103 bp):
GGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCC
TGATTTTATTGCAAAAACACCAATTTTTCCACAATCGA
Found at i:1336072 original size:28 final size:28
Alignment explanation
Indices: 1336036--1336112 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
1336026 ATTTTTCATA
* *
1336036 ATCGAGGATACTCCAACCTCGTTA-TCTC
1 ATCGGGGATACTCCAACCCCGTTACT-TC
1336064 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1336092 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1336113 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1336131 original size:264 final size:262
Alignment explanation
Indices: 1335662--1336163 Score: 790
Period size: 264 Copynumber: 1.9 Consensus size: 262
1335652 TTCTCAATTC
* * * *
1335662 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
1335727 TACTCCAACTCCGATTTTATTTCCAAAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCC
* *
1335792 CGTTAATCATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATT
130 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* *
1335857 TCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAAT
195 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAAT
1335922 TTT
260 TTT
* *
1335925 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTTT-CTATAATCGGG
* * * *
1335990 GATACTCCAACTCCGATTTTATTTTC-AAAAATACCAATTTTTCATAATCGAGGATACTCCAACC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACC
* * *
1336054 TCGTTATCTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA
129 CCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTA
*
1336119 TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCTG
193 TTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCTG
1336164 TTATTTTCGA
Statistics
Matches: 217, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
263 82 0.38
264 100 0.46
265 35 0.16
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (262 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTC
CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAATT
TT
Found at i:1337389 original size:12 final size:12
Alignment explanation
Indices: 1337372--1337396 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1337362 TAACTTTTCT
1337372 TTTTCGACTTCA
1 TTTTCGACTTCA
1337384 TTTTCGACTTCA
1 TTTTCGACTTCA
1337396 T
1 T
1337397 GTTGTGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTTCGACTTCA
Found at i:1342546 original size:55 final size:55
Alignment explanation
Indices: 1342428--1344061 Score: 1700
Period size: 55 Copynumber: 28.4 Consensus size: 55
1342418 CTCTTTTAGC
1342428 CCTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCC-AGTCCTCAAAGAGCAGGACG----C-C-TTTTAAAGCCCACACAAGTTGGTGGCA
*
1342490 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1342545 -CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-CCAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCA
*
1342606 -CTTCCTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
1342661 TTTTCCAGTCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1342716 -CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTT-CCAGTCCTCAAAGAGCAGGACG-C--C-T-TTT-AAAGCCCACACAAGTTGGTGGCA
** * * * *
1342777 TTTTCCAATCCTCAAAGAGGAGGATGCCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1342832 -CTTCTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTC-CAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
1342887 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAATGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
1342942 -CTTCCTAATCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1342997 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCC-AGTCCTCAAAGAGCAGGACG-C--C-T-TTT-AAAGCCCACACAAGTTGGTGGCA
** * * * *
1343058 ATTTCCAATCCTCAAAAAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1343113 CCTT-CAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAGCCCCCACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGA--C---GCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
1343172 TTTTCTAGTCCTCAAAGAGC-GAGACGCCTTTTCTTTAAAAGCCCACCCAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAG-GACGCC---T-TTT-AAAGCCCACACAAGTTGGTGGCA
*
1343232 CCTT-CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCA
** *
1343292 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1343347 CCTTTCC-GTCCCCAAAGAACAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CC-TTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1343402 -CTTCCCAGTCCTTAAAGAACAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-CCAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
1343463 TTTTCCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-CCAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1343524 CCTTTCC-GTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CC-TTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1343579 -CTTCCCAGTCCTCAAAGAGTAGGACACCTTCTCCTTTTAAAGCCCACCCAAGTTGGTGGCA
1 CCTT-CCAGTCCTCAAAGAGCAGG--A----CGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1343640 CCTT-CAGTCCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGC-----CTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1343699 CCTT-CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCA
*
1343758 CCTT-CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCA
** * * *
1343818 CCTTTAAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1343873 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
1343928 TTTTCCAATCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
1343983 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGGGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
1344038 CTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTCCAGTCCTCAAAGAGCAGGA
1344062 TACACTTTAT
Statistics
Matches: 1375, Mismatches: 118, Indels: 165
0.83 0.07 0.10
Matches are distributed among these distances:
53 4 0.00
54 34 0.02
55 669 0.49
56 31 0.02
57 5 0.00
58 8 0.01
59 168 0.12
60 137 0.10
61 285 0.21
62 33 0.02
64 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (55 bp):
CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1342640 original size:116 final size:114
Alignment explanation
Indices: 1342430--1344061 Score: 1809
Period size: 116 Copynumber: 14.2 Consensus size: 114
1342420 CTTTTAGCCC
*
1342430 TTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 TTCC-AGTCCTCAAAGAGCAGGACG-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
*
1342495 TAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACT
64 -AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
*
1342547 TCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 TTCCAGTCCTCAAAGAGCAGGACG-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC-
* *
1342612 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATT
64 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* *
1342663 TTCCAGTCCTTAAAGAGCAGGA-----CACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1 TTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCA
*
1342723 GTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATT
65 GTCCTCAAAGAGCAGGACG-C--C-T-TTT-AAAGCCCACACAAGTTGGTGGCACT
* * * * *
1342779 TTCCAATCCTCAAAGAGGAGGA----T-GCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCTTA
1 TTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC-CA
* *
1342839 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATT
65 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* *
1342889 TTCCAGTCCTCAAAGAGCAGGACAC--CT-C--TTAATGCCCACACAAGTTGGTGGCACTTCCTA
1 TTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC-A
* **
1342949 ATCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGGCAC-
65 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* * *
1342998 TTCCTAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCAATTTC
1 TTCC-AGTCCTCAAAGAGCAGGACG-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC-ACTTC
* * * * *
1343063 CAATCCTCAAAAAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCACC
63 CAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* * * * *
1343115 TT-CAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAGCCCCCACAAGTTGGTGGCATTTTCTA
1 TTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCA
* *
1343179 GTCCTCAAAGAGC-GAGACGCCTTTTCTTTAAAAGCCCACCCAAGTTGGTGGCACC
65 GTCCTCAAAGAGCAG-GACGCC---T-TTT-AAAGCCCACACAAGTTGGTGGCACT
* * * *
1343234 TT-CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 TTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCC
*
1343298 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCT
64 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CT
* *
1343350 TTCC-GTCCCCAAAGAACAGGA--C--C-CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1 TTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCA
* * *
1343409 GTCCTTAAAGAACAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATT
65 GTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACT
* *
1343465 TTCCCAGTCCTCAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 TT-CCAGTCCTCAAAGAGCAGGACG-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-C-TT
* *
1343529 CC-GTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACT
62 CCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* * * *
1343581 TCCCAGTCCTCAAAGAGTAGGACACCTTCTCCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-C
1 TTCCAGTCCTCAAAGAGCAGGAC-GCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
*
1343645 AGTCCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
64 AGTCCTCAAAGAGCAGGACGC-----CTTTTAAAGCCCACACAAGTTGGTGGCACT
* * *
1343701 TT-CAGTCCTCAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-C
1 TTCCAGTCCTCAAAGAGCAGGACG-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
*
1343763 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
64 AGTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCA-CT
* * * *
1343821 TT-AAGTCCCCAAAGAGCAGGA--C--C-CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
1 TTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCA
* * *
1343880 GTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATT
65 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* * *
1343930 TTCCAATCCTCAAAGAGCAGGACAC--CT-C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCA
1 TTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCA
* **
1343990 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGGGTTGGTGGCACT
65 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
**
1344040 TTTTAGTCCTCAAAGAGCAGGA
1 TTCCAGTCCTCAAAGAGCAGGA
1344062 TACACTTTAT
Statistics
Matches: 1342, Mismatches: 105, Indels: 143
0.84 0.07 0.09
Matches are distributed among these distances:
109 9 0.01
110 365 0.27
111 17 0.01
112 5 0.00
113 6 0.00
114 54 0.04
115 121 0.09
116 424 0.32
117 28 0.02
118 66 0.05
119 102 0.08
120 96 0.07
121 1 0.00
122 43 0.03
123 3 0.00
124 2 0.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (114 bp):
TTCCAGTCCTCAAAGAGCAGGACGCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAG
TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
Found at i:1342720 original size:171 final size:172
Alignment explanation
Indices: 1342428--1344061 Score: 1851
Period size: 171 Copynumber: 9.5 Consensus size: 172
1342418 CTCTTTTAGC
1342428 CCTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA-C-
1 CCTTCC-AGTCCTCAAAGAGCAGGACG----C-C-TTTTAAAGCCCACACAAGTTGGTGGCACCT
* *
1342491 TTCCTAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCC
59 TTCC-AGTCCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCC
1342556 TCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
123 TCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1342606 -CTTCCTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
1 CCTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAG
* *
1342669 TCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
65 TCCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
* *
1342734 GCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCA
130 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * * *
1342777 TTTTCCAATCCTCAAAGAGGAGGATGCCTTTTAAAGCCCACATAAGTTGGTGGCA-C-TTCTTAG
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-CAG
** * *
1342840 TCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
65 TCCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGA
* *
1342905 GCAGGAC-AC--CT-C--TTAATGCCCACACAAGTTGGTGGCA
130 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
1342942 -CTTCCTAATCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGGCA-C-TTCCTA
1 CCTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCC-A
* * *
1343004 GTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCAATTTCCAATCC
64 GTCCTCAAAGAGCAGGAC-CC--C-T-TTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCC
* * *
1343069 TCAAAAAGCAGGA-----T-GCCTTTTAAAGCCCACCCAAGTTGGTGGCA
123 TCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1343113 CCTT-CAGTCCTCAAAGAGCAGGATGCTTTTCCTTTTAAAGCCCCCACAAGTTGGTGGCA-TTTT
1 CCTTCCAGTCCTCAAAGAGCAGGA--C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
1343176 CTAGTCCTCAAAGAGC-GAGACGCCTTTTCTTTAAAAGCCCACCCAAGTTGGTGGCACCTT--CA
61 CCAGTCCTCAAAGAGCAG-GAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCA
* * *
1343238 GTCCTCAAAGAGCAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
119 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
** *
1343292 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCC-GT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAGT
* * * *
1343356 CCCCAAAGAACAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTTAAAGAA
66 CCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAG
1343421 CAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
131 CAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
1343463 TTTTCCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTT-CCAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTT
*
1343528 TCC-GTCCCCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
60 TCCAGTCCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
* * *
1343592 AAAGAGTAGGACACCTTCTCCTTTTAAAGCCCACCCAAGTTGGTGGCA
125 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1343640 CCTT-CAGTCCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TT
1 CCTTCCAGTCCTCAAAGAGCAGGACGC-----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
1343703 -CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT--CAG
61 CCAGTCCTCAAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAG
* * *
1343765 TCCTCAAAGAGCAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
120 TCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
** * * *
1343818 CCTTTAAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAGT
* * * * *
1343882 CCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAG
66 CCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAG
*
1343947 CAGGAC-AC--CT-C--TTAAAGCCCACACAAGTTGGTGGCA
131 CAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** **
1343983 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGGGTTGGTGGCA-CTTTTTAGT
1 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAGT
1344047 CCTCAAAGAGCAGGA
66 CCTCAAAGAGCAGGA
1344062 TACACTTTAT
Statistics
Matches: 1295, Mismatches: 102, Indels: 131
0.85 0.07 0.09
Matches are distributed among these distances:
164 8 0.01
165 181 0.14
166 3 0.00
167 1 0.00
168 4 0.00
169 8 0.01
170 77 0.06
171 379 0.29
172 41 0.03
173 20 0.02
174 74 0.06
175 170 0.13
176 9 0.01
177 178 0.14
178 50 0.04
179 70 0.05
180 22 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (172 bp):
CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAGT
CCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAG
CAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1344832 original size:21 final size:21
Alignment explanation
Indices: 1344808--1344855 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
1344798 AAAATTTCCA
1344808 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1344829 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1344850 AATGTA
1 AATGTA
1344856 CAAATGTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1344931 original size:19 final size:18
Alignment explanation
Indices: 1344907--1344978 Score: 82
Period size: 19 Copynumber: 4.2 Consensus size: 18
1344897 AATTCAACAA
1344907 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAA-T
1344926 TTTGTATCGATAC--AA-
1 TTTGTATCGATACATAAT
1344941 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAA-T
*
1344958 ATTGTATCGATACATAAT
1 TTTGTATCGATACATAAT
1344976 TTT
1 TTT
1344979 CTACTGCCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
13 11 0.24
15 2 0.04
17 2 0.04
18 3 0.07
19 28 0.61
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTGTATCGATACATAAT
Found at i:1344946 original size:13 final size:13
Alignment explanation
Indices: 1344928--1344952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1344918 ACATAAGTTT
1344928 TGTATCGATACAA
1 TGTATCGATACAA
1344941 TGTATCGATACA
1 TGTATCGATACA
1344953 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1344950 original size:32 final size:32
Alignment explanation
Indices: 1344909--1344971 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1344899 TTCAACAATT
*
1344909 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1344941 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1344972 TAATTTTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1347539 original size:27 final size:28
Alignment explanation
Indices: 1347505--1347580 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
1347495 TATTTTCACA
1347505 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
1347532 ATCGGGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
1347560 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1347581 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:1347680 original size:52 final size:51
Alignment explanation
Indices: 1347399--1347785 Score: 241
Period size: 52 Copynumber: 7.4 Consensus size: 51
1347389 AATTCTCCAC
* * * *
1347399 AATCGGGGATATTCCAACTCCGATTTTATTT-TCAAGACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATTTTTC-AT
* * *
1347450 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATCACC-ATATTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTT-C-TAAAA-CACCAAT-TTTTCAT
* * ** * * **
1347504 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCTCGTT-AT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC--TAAAACACCAA--TTTTTCAT
* * * * ***
1347557 -TTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCAT
1 AAT-C--GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCAT
* * * * * *
1347610 ATTCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTT-CAT
* *
1347662 AATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATTTTT-C-AT
* * *
1347715 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAATACCAATTTTTCAT
1 AATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACACCAATTTTTCAT
*
1347767 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
1347786 TCGTTATCTC
Statistics
Matches: 262, Mismatches: 51, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
51 67 0.26
52 76 0.29
53 40 0.15
54 49 0.19
55 24 0.09
56 2 0.01
57 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCAT
Found at i:1347804 original size:28 final size:28
Alignment explanation
Indices: 1347768--1347844 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
1347758 ATTTTTCATA
* *
1347768 ATCGAGGATACTCCAACCTCGTTA-TCTC
1 ATCGGGGATACTCCAACCCCGTTACT-TC
*
1347796 ATCGGGGATACTCCAGCCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1347824 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1347845 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 40 0.98
29 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1347863 original size:264 final size:263
Alignment explanation
Indices: 1347394--1347895 Score: 778
Period size: 264 Copynumber: 1.9 Consensus size: 263
1347384 TTCTCAATTC
* * * *
1347394 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
1347459 TACTCCAACTCCGATTTTATTTCCAAAAAATCACCATATTTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAATCACCATATTTTCACAATCGAGGATACTCCAACCC
* *
1347524 CGTTAATCATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* *
1347589 TCCAAAATATTGATTTTTCAT-ATTCGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAA
196 CCCAAAATATTGATTTCTCATAATT-GGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAA
1347653 TTTT
260 TTTT
* *
1347657 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTTT-CTATAATCGGG
* *
1347722 GATACTCCAACTCCGATTTTATTTTC-AAAAAT-ACCA-ATTTTTCATAATCGAGGATACTCCAA
64 GATACTCCAACTCCGATTTTATTTCCAAAAAATCACCATA-TTTTCACAATCGAGGATACTCCAA
* * * *
1347784 CCTCGTTATCTCATCGGGGATACTCCAGCCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
128 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTT
1347849 TATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCTG
192 TATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCTG
1347896 TTATTTTCGA
Statistics
Matches: 217, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
262 1 0.00
263 76 0.35
264 102 0.47
265 38 0.18
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAATCACCATATTTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:1350062 original size:126 final size:127
Alignment explanation
Indices: 1349876--1350130 Score: 476
Period size: 126 Copynumber: 2.0 Consensus size: 127
1349866 CTTGTAGGAG
*
1349876 TAAGGAGCAGGTCAAAGTGTTCCCTTTCTCGGGGTGTTTGTTGGTTGTTTATGTTCCTTGCGTTA
1 TAAGGAGCAGGTCAAAATGTTCCCTTTCTCGGGGTGTTTGTTGGTTGTTTATGTTCCTTGCGTTA
*
1349941 ACTACATGGTAAGGCTGCACGTTTTGGGTCATGCTCAGAGCTGGATTTAGGGTGAAATTCAT
66 ACTACATGGTAAGGCTGCACGTTTTGGGTCATGCTCAGAGCTAGATTTAGGGTGAAATTCAT
1350003 TAAGGAGCAGGTCAAAATGTT-CCTTTCTCGGGGTGTTTGTTGGTTGTTTATGTTCCTTGCGTTA
1 TAAGGAGCAGGTCAAAATGTTCCCTTTCTCGGGGTGTTTGTTGGTTGTTTATGTTCCTTGCGTTA
*
1350067 ACTGCATGGTAAGGCTGCACGTTTTGGGTCATGCTCAGAGCTAGATTTAGGGTGAAATTCAT
66 ACTACATGGTAAGGCTGCACGTTTTGGGTCATGCTCAGAGCTAGATTTAGGGTGAAATTCAT
1350129 TA
1 TA
1350131 TTGGAACAAT
Statistics
Matches: 125, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
126 105 0.84
127 20 0.16
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (127 bp):
TAAGGAGCAGGTCAAAATGTTCCCTTTCTCGGGGTGTTTGTTGGTTGTTTATGTTCCTTGCGTTA
ACTACATGGTAAGGCTGCACGTTTTGGGTCATGCTCAGAGCTAGATTTAGGGTGAAATTCAT
Found at i:1356078 original size:79 final size:78
Alignment explanation
Indices: 1355879--1356250 Score: 284
Period size: 79 Copynumber: 4.8 Consensus size: 78
1355869 ACAACGGGGC
** *
1355879 TGGAGTATCCCCTGATTATGGAAAATTGGTG-TTCTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 TGGAGTAT-CCC-GATTATGGAAAATTGAAGCTT-TAGAAATAAAACCGGGGTTGGAGTATCCCC
** *
1355943 TTGAAAATAACAAGGT
63 TCAAAAATAACGAGGT
* * * * *
1355959 TGGA-TCGTCCCAGATTATAGG-AAA-T-CAGCGTTTTGAAAATAAAATCGAGGTTGGAGTATCC
1 TGGAGT-ATCCC-GATTAT-GGAAAATTGAAGC-TTTAG-AAATAAAACCGGGGTTGGAGTATCC
* *
1356020 ACTCAAAAATAACGGGGT
61 CCTCAAAAATAACGAGGT
** * * *
1356038 TGGAGTATCCTCGATTATGGAAAATTGAAGCTTTAGAAATAAGGCCTGGATTGGAGTATCCCCGC
1 TGGAGTATCC-CGATTATGGAAAATTGAAGCTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC
* *
1356103 CAAAATAATGAGGT
65 AAAAATAACGAGGT
* **
1356117 TGGAGTATCCC-----T-G-AAA-TCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCGATTATGGAAAATTGAA-GCTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC
*
1356174 AAAAATAACGAGAT
65 AAAAATAACGAGGT
* * ** * *
1356188 TGGAGTATCCCCAATTATGAAAAATTGTTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
1 TGGAGTAT-CCCGATTATGGAAAATTGAAGCTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1356251 GAGATGAAAA
Statistics
Matches: 230, Mismatches: 42, Indels: 41
0.73 0.13 0.13
Matches are distributed among these distances:
70 3 0.01
71 51 0.22
72 4 0.02
73 1 0.00
77 2 0.01
78 6 0.03
79 145 0.63
80 15 0.07
81 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (78 bp):
TGGAGTATCCCGATTATGGAAAATTGAAGCTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCA
AAAATAACGAGGT
Found at i:1356249 original size:51 final size:50
Alignment explanation
Indices: 1356190--1356313 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 50
1356180 AACGAGATTG
* *** * *
1356190 GAGTATCCCCAATTATGAAAAATTGTTGTTTTAGAAATAAAACCGGGGTTA
1 GAGTATCCCCAA-GATGAAAAATCAATATTTTAGAAATAAAACCGGGGTAA
* **
1356241 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAGTCGGGGTAA
1 GAGTATCCCCAAGATGAAAAATCAATATTTTAGAAATAAAACCGGGGTAA
*
1356291 GAGTAT-CTCAGAGATGAAAAATC
1 GAGTATCCCCA-AGATGAAAAATC
1356314 TAGAAATTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.03
50 48 0.79
51 11 0.18
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (50 bp):
GAGTATCCCCAAGATGAAAAATCAATATTTTAGAAATAAAACCGGGGTAA
Found at i:1356272 original size:50 final size:50
Alignment explanation
Indices: 1356218--1356313 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
1356208 AAAATTGTTG
* *
1356218 TTTTAGAAATAAAACCGGGGTTAGAGTATCCCCGAGATGAAAAATCAATA
1 TTTTAGAAATAAAACCGGGGTAAGAGTATCCCAGAGATGAAAAATCAATA
** *
1356268 TTTTAGAAATAAAGTCGGGGTAAGAGTATCTCAGAGATGAAAAATC
1 TTTTAGAAATAAAACCGGGGTAAGAGTATCCCAGAGATGAAAAATC
1356314 TAGAAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (50 bp):
TTTTAGAAATAAAACCGGGGTAAGAGTATCCCAGAGATGAAAAATCAATA
Found at i:1359755 original size:150 final size:151
Alignment explanation
Indices: 1359563--1360124 Score: 606
Period size: 150 Copynumber: 3.7 Consensus size: 151
1359553 AAGGATAAAA
* * * *
1359563 ATGAACCTATCCCTAACT-TATACCTTTAGCATAAAAGCGGACCCGGTAACAACCTAAGAATTGG
1 ATGAACCTAT-CCTAAATGTACACCTTTAGCATAGAAGCGGACCTGGTAACAACCTAAGAATTGG
* * * * * *
1359627 TTAT-GAAAAATTA-TGTAAGTGCCCTTAAGGGATACCTTCGACGTAAAAATACCTAATACCCCT
65 TTTTAGAAAAATTACT-AAAATGCCCTTAAGGGATACCTTCAACGTAAAAGTACTTAATACCCCT
**
1359690 AAAGGACTTAAAAAGGTAAAGAG-
129 AAAGGACTTAAAAAGAAAAAG-GT
* * *
1359713 ATGAACCTATCTTAAATGTACACCTTTGGCATAGAAGCGGACCTGGTGACAACCT-AGAACTTGG
1 ATGAACCTATCCTAAATGTACACCTTTAGCATAGAAGCGGACCTGGTAACAACCTAAGAA-TTGG
* * *
1359777 TTTTAGAAAAA-TACTAAAATGCCCTTAGGGGATACCTTCAACATAAAAGTA-TTAGATACCTCT
65 TTTTAGAAAAATTACTAAAATGCCCTTAAGGGATACCTTCAACGTAAAAGTACTTA-ATACCCCT
1359840 AAAGGACTTAAAAAGAAAAAGGT
129 AAAGGACTTAAAAAGAAAAAGGT
* * * * * * * *
1359863 GTGAGCCTATCCTAAATGTACACCTTCAGCATGGAAGCGGACCTGGTGACAACTTAGGACTTGGT
1 ATGAACCTATCCTAAATGTACACCTTTAGCATAGAAGCGGACCTGGTAACAACCTAAGAATTGGT
* * * *
1359928 TTTAGAAAAATTACTTAAATGGCCC--AAGAGATACCTTCAACTTAAAAGTACTTGATACCCCTA
66 TTTAGAAAAATTACTAAAAT-GCCCTTAAGGGATACCTTCAACGTAAAAGTACTTAATACCCCTA
1359991 AAGGACTTAAAAAGAAAAAGGT
130 AAGGACTTAAAAAGAAAAAGGT
* * ** * * ** *
1360013 TTGAACCTATCCTAAATGTACACCTTTGGCACGGTAGCGGACTTGGTAATGACCTAGGAATTGGT
1 ATGAACCTATCCTAAATGTACACCTTTAGCATAGAAGCGGACCTGGTAACAACCTAAGAATTGGT
* * *
1360078 TCT-GAAAAATTA-TAAAAATACCCTTAAGGGATACCTTTAACGTAAAA
66 TTTAGAAAAATTACT-AAAATGCCCTTAAGGGATACCTTCAACGTAAAA
1360125 TATTTCAGTA
Statistics
Matches: 348, Mismatches: 51, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
148 4 0.01
149 25 0.07
150 296 0.85
151 19 0.05
152 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (151 bp):
ATGAACCTATCCTAAATGTACACCTTTAGCATAGAAGCGGACCTGGTAACAACCTAAGAATTGGT
TTTAGAAAAATTACTAAAATGCCCTTAAGGGATACCTTCAACGTAAAAGTACTTAATACCCCTAA
AGGACTTAAAAAGAAAAAGGT
Found at i:1360748 original size:13 final size:13
Alignment explanation
Indices: 1360730--1360754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1360720 CCATGTACTT
1360730 TTAAAAGTTGCAC
1 TTAAAAGTTGCAC
1360743 TTAAAAGTTGCA
1 TTAAAAGTTGCA
1360755 TTTTGTACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
TTAAAAGTTGCAC
Found at i:1361878 original size:20 final size:22
Alignment explanation
Indices: 1361836--1361878 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1361826 TTGTTTGCTC
*
1361836 TCTTCTTTTTTTTAGTGCTGTTT
1 TCTTCTTTTTTTTA-TGCCGTTT
1361859 TCTTCTTTTTTTT-T-CCGTTT
1 TCTTCTTTTTTTTATGCCGTTT
1361879 CTGCTGTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 1 0.05
23 13 0.68
ACGTcount: A:0.02, C:0.16, G:0.09, T:0.72
Consensus pattern (22 bp):
TCTTCTTTTTTTTATGCCGTTT
Found at i:1361963 original size:23 final size:21
Alignment explanation
Indices: 1361889--1361959 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
1361879 CTGCTGTTAC
*
1361889 CTTTT-CTTCCTTTTTTCTTTG
1 CTTTTCCTTCCTTTTTT-TTTT
* *
1361910 CTGTTTCGATTGCTTTTTTTTTT
1 CT-TTTC-CTTCCTTTTTTTTTT
1361933 CTTTTCCTTCCTTTTTTTTCTT
1 CTTTTCCTTCCTTTTTTTT-TT
1361955 -TTTTC
1 CTTTTC
1361960 TCCTCTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 18 0.44
22 9 0.22
23 5 0.12
24 9 0.22
ACGTcount: A:0.01, C:0.21, G:0.06, T:0.72
Consensus pattern (21 bp):
CTTTTCCTTCCTTTTTTTTTT
Found at i:1361968 original size:19 final size:19
Alignment explanation
Indices: 1361927--1361969 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1361917 GATTGCTTTT
*
1361927 TTTTTTCTTTTCCTTCCTT
1 TTTTTTCTTTTCCTTCCTC
*
1361946 TTTTTTCTTTT-TTCTCCTC
1 TTTTTTCTTTTCCT-TCCTC
1361965 TTTTT
1 TTTTT
1361970 ACTCTTTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTCTTTTCCTTCCTC
Found at i:1362012 original size:24 final size:26
Alignment explanation
Indices: 1361985--1362034 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
1361975 TTTGCTATAG
*
1361985 CTGTTAC-TTCCTT-ATTTGTTGCAA
1 CTGTTACATTCCTTCATTTGCTGCAA
1362009 CTGTTACTATTCCTTCATTTGCTGCA
1 CTGTTAC-ATTCCTTCATTTGCTGCA
1362035 GCCGGTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
26 6 0.27
27 9 0.41
ACGTcount: A:0.16, C:0.24, G:0.12, T:0.48
Consensus pattern (26 bp):
CTGTTACATTCCTTCATTTGCTGCAA
Found at i:1362535 original size:14 final size:15
Alignment explanation
Indices: 1362509--1362540 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1362499 TAATTAACTA
1362509 AATTTTAATTTTTTT
1 AATTTTAATTTTTTT
1362524 AATTTT-ATTTTTTT
1 AATTTTAATTTTTTT
1362538 AAT
1 AAT
1362541 AAATCAACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
AATTTTAATTTTTTT
Found at i:1369527 original size:153 final size:153
Alignment explanation
Indices: 1369227--1369656 Score: 556
Period size: 153 Copynumber: 2.8 Consensus size: 153
1369217 TAGTATCCAC
* * * ** * *
1369227 TAGGGTTACTAGGATACTTTGATGTTGAAGGTATACCTATAGGGGCATTTTTGTGATTTTTCAAA
1 TAGGGTTACCAGGATACTTTCATGTTGAAGGTATACCTATAAGGGCATTTTCAT-A-ATTTCAGA
* * *
1369292 ACCTAGTCTTAGGTTGTCACCAAGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTTAT
64 ACCTAGTC-TAGGTTGTCACCAGGTCTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCAT
*
1369357 CCCAGCTTTAATATTTTTAAGT-TCTT
128 CCCAGCTCTAATATTTTTAAGTCT-TT
*
1369383 TAGGCTTACCAGGATACTTTCATGTTGAAGGTATACCTATAAGGGCATTTTCATAATTTCAGAAC
1 TAGGGTTACCAGGATACTTTCATGTTGAAGGTATACCTATAAGGGCATTTTCATAATTTCAGAAC
* ** *
1369448 CTAGTCTAGGTTGTCACCGGGTCTGCTTTTATGCTGAAGATGGGCATTTAGGATAGGTTCATCCC
66 CTAGTCTAGGTTGTCACCAGGTCTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCC
** *
1369513 TTCTCTAATCTTTTTAAGTCTTT
131 AGCTCTAATATTTTTAAGTCTTT
* * * *
1369536 TAGGGTTACCGGGATACTTTCATGTCGAAGGTATACCCATAAGGGTATTTTCATAATTTCTTAGA
1 TAGGGTTACCAGGATACTTTCATGTTGAAGGTATACCTATAAGGGCATTTTCATAATTTC--AGA
* * *
1369601 ACCTAGTCCTAGGTTGTCAACAGGTCTGCTTTTATGCCCAAGGTTGGCATTTAGGA
64 ACCTAGT-CTAGGTTGTCACCAGGTCTGCTTTTATGCCAAAGGTGGGCATTTAGGA
1369657 ATCTTTTTAA
Statistics
Matches: 240, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
153 124 0.52
154 15 0.06
155 11 0.05
156 90 0.38
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (153 bp):
TAGGGTTACCAGGATACTTTCATGTTGAAGGTATACCTATAAGGGCATTTTCATAATTTCAGAAC
CTAGTCTAGGTTGTCACCAGGTCTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATCCC
AGCTCTAATATTTTTAAGTCTTT
Found at i:1369770 original size:137 final size:137
Alignment explanation
Indices: 1369519--1369772 Score: 377
Period size: 137 Copynumber: 1.9 Consensus size: 137
1369509 TCCCTTCTCT
* * *
1369519 AATCTTTTTAAGTCTTTTAGGGTTACCGGGATACTTTCATGTCGAAGGTATACCCATAAGGGTAT
1 AATCTTTTTAAGTCTTTTAAGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAAGGGCAT
** *
1369584 TTTCATAATTTCTTAGAACCTAGTCCTAGGTTGTCAACAGGTCTGCTTTTATGCCCAAGGTTGGC
66 TTTCATAATTTCTTAGAACCTAGTCCTAAATTGTCAACAGGTCTACTTTTATGCCCAAGGTTGGC
1369649 ATTTAGG
131 ATTTAGG
*
1369656 AATCTTTTTAAGTCTTTTAAGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAGGGGCAT
1 AATCTTTTTAAGTCTTTTAAGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAAGGGCAT
* * * *
1369721 TTTCTTAATTTCTTA-CAGCTAAGTCCTAAATTGTCATC-GGTTCTACTTTTAT
66 TTTCATAATTTCTTAGAACCT-AGTCCTAAATTGTCAACAGG-TCTACTTTTAT
1369773 ACTGAAGGTA
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
136 5 0.05
137 99 0.95
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.39
Consensus pattern (137 bp):
AATCTTTTTAAGTCTTTTAAGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAAGGGCAT
TTTCATAATTTCTTAGAACCTAGTCCTAAATTGTCAACAGGTCTACTTTTATGCCCAAGGTTGGC
ATTTAGG
Found at i:1374089 original size:20 final size:20
Alignment explanation
Indices: 1374064--1374114 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1374054 AATACTTCAA
1374064 AGTATCGATACATAGGTATT
1 AGTATCGATACATAGGTATT
1374084 AGTATCGATACATAGGTATT
1 AGTATCGATACATAGGTATT
*
1374104 TGTATCGATAC
1 AGTATCGATAC
1374115 TGAAAGCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (20 bp):
AGTATCGATACATAGGTATT
Found at i:1375408 original size:13 final size:13
Alignment explanation
Indices: 1375390--1375414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1375380 TACCACTGTT
1375390 TGTATCGATACAA
1 TGTATCGATACAA
1375403 TGTATCGATACA
1 TGTATCGATACA
1375415 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1375960 original size:21 final size:21
Alignment explanation
Indices: 1375919--1375962 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1375909 CTCCCCTTTA
* *
1375919 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1375940 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1375961 TC
1 TC
1375963 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1379856 original size:15 final size:15
Alignment explanation
Indices: 1379836--1379866 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1379826 ATTTCGTTTG
*
1379836 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1379851 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1379866 G
1 G
1379867 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1381716 original size:21 final size:21
Alignment explanation
Indices: 1381669--1381713 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1381659 AAGTTTTCAT
1381669 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
1381689 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
1381711 TTT
1 TTT
1381714 CATCTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:1384492 original size:13 final size:13
Alignment explanation
Indices: 1384474--1384498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1384464 TACCACTGTT
1384474 TGTATCGATACAA
1 TGTATCGATACAA
1384487 TGTATCGATACA
1 TGTATCGATACA
1384499 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.