Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 301 of 313
Found at i:92513228 original size:16 final size:16
Alignment explanation
Indices: 92513204--92513255 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
92513194 GTAGCCAAAC
*
92513204 TTTCTACTTTTCGGCA
1 TTTCGACTTTTCGGCA
*
92513220 TTTCGACTTTTCGGCT
1 TTTCGACTTTTCGGCA
*
92513236 TTTCGGCTTTTCGGCA
1 TTTCGACTTTTCGGCA
92513252 TTTC
1 TTTC
92513256 AGCTTTTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.08, C:0.25, G:0.17, T:0.50
Consensus pattern (16 bp):
TTTCGACTTTTCGGCA
Found at i:92517621 original size:10 final size:11
Alignment explanation
Indices: 92517596--92517633 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
92517586 TATACGAGTA
92517596 AATTTAAAATC
1 AATTTAAAATC
*
92517607 AATTTAATA-C
1 AATTTAAAATC
*
92517617 AATTTAAACTC
1 AATTTAAAATC
92517628 AATTTA
1 AATTTA
92517634 GTCCAATTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTTAAAATC
Found at i:92526459 original size:22 final size:22
Alignment explanation
Indices: 92526431--92526472 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
92526421 CTTAGTAGTC
92526431 TACGTGATCAGGTGTGTGACCG
1 TACGTGATCAGGTGTGTGACCG
92526453 TACGTGATCAGGTGTGTGAC
1 TACGTGATCAGGTGTGTGAC
92526473 GTATGCTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.29
Consensus pattern (22 bp):
TACGTGATCAGGTGTGTGACCG
Found at i:92527023 original size:27 final size:27
Alignment explanation
Indices: 92526993--92527581 Score: 517
Period size: 27 Copynumber: 21.9 Consensus size: 27
92526983 AGACCCCGGA
92526993 TTGTAAAATTACCGAAATACCCCCAGT
1 TTGTAAAATTACCGAAATACCCCCAGT
* *
92527020 TTGTAAAATTACCGAAATACCCTCGGT
1 TTGTAAAATTACCGAAATACCCCCAGT
92527047 TTGTAAAATTACCGAAATACCCCCAGT
1 TTGTAAAATTACCGAAATACCCCCAGT
* *
92527074 TTGTAAAATTATCGAAATACCCTCAGT
1 TTGTAAAATTACCGAAATACCCCCAGT
* *
92527101 TTGTAAAATTATCGAAATACCCTCAGT
1 TTGTAAAATTACCGAAATACCCCCAGT
*** ** *
92527128 TTGTAAAATTATTAAAATACCTTCGGT
1 TTGTAAAATTACCGAAATACCCCCAGT
* *
92527155 TTGTCAAATTACCAAAATACCCCCAGT
1 TTGTAAAATTACCGAAATACCCCCAGT
* * *
92527182 TTGTAAAATTACCAAAATACCCTCAAT
1 TTGTAAAATTACCGAAATACCCCCAGT
* * ** * * *
92527209 TTTTAAAATAATTGAAATACACTCGGT
1 TTGTAAAATTACCGAAATACCCCCAGT
* *
92527236 TTGTAAAATTATCAAAATACCCCC-GAT
1 TTGTAAAATTACCGAAATACCCCCAG-T
** * *
92527263 TTGTAAAATTATTGAAATACCCCTAAT
1 TTGTAAAATTACCGAAATACCCCCAGT
* *
92527290 TTGTAAAATTATCGAAATACCTCC-GAT
1 TTGTAAAATTACCGAAATACCCCCAG-T
*
92527317 TTGTAAAATTACCGAAATACCCCGA-T
1 TTGTAAAATTACCGAAATACCCCCAGT
* *
92527343 TTATAAAATTACCGAAAGACCCCC-GAT
1 TTGTAAAATTACCGAAATACCCCCAG-T
* **
92527370 TTGTAACATTACTAAAATACCCCC-GAT
1 TTGTAAAATTACCGAAATACCCCCAG-T
* * *
92527397 TTGTAAAATTGCTGAAATAACCCCAGT
1 TTGTAAAATTACCGAAATACCCCCAGT
* * * **
92527424 TTATAAAATTACTGAAACA-CCCTTGAT
1 TTGTAAAATTACCGAAATACCCCCAG-T
* * **
92527451 TTGTAAAATTACTGAAGTACCCTTAGT
1 TTGTAAAATTACCGAAATACCCCCAGT
* *
92527478 TTGTAAAATTACTGAAATACCCCCAAT
1 TTGTAAAATTACCGAAATACCCCCAGT
* ** *
92527505 TTGTAAAATTACTGAAATACCCTTAAT
1 TTGTAAAATTACCGAAATACCCCCAGT
** * *
92527532 TTGTAAAATTATTGAAATATCCTC-GAT
1 TTGTAAAATTACCGAAATACCCCCAG-T
* *
92527559 TTATAAAATTATCGAAATACCCC
1 TTGTAAAATTACCGAAATACCCC
92527582 TATAGGGCAA
Statistics
Matches: 472, Mismatches: 80, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
26 27 0.06
27 440 0.93
28 5 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCCCAGT
Found at i:92536839 original size:8 final size:8
Alignment explanation
Indices: 92536826--92536857 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
92536816 AATTAGGGAC
92536826 TAAAATGT
1 TAAAATGT
92536834 TAAAATGT
1 TAAAATGT
92536842 TAAAATGT
1 TAAAATGT
*
92536850 AAAAATGT
1 TAAAATGT
92536858 GAGGGCTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (8 bp):
TAAAATGT
Found at i:92537327 original size:86 final size:85
Alignment explanation
Indices: 92537226--92537390 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 85
92537216 TTCCGATATG
*
92537226 TGATTTCGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGAT-TTGAGATTTACGTGTAAGACCA
1 TGATTTCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATATT-AGA-TTACATGTAAGACCA
* * *
92537288 TGTCTGGGACATTGGCATCATGTT
62 CGCCTAGGACATTGGCATCATGTT
* * *
92537312 TGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCACGCC
1 TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTAGATTACATGTAAGACCACGCC
*
92537377 TAGGACGTTGGCAT
66 TAGGACATTGGCAT
92537391 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 29 0.43
86 36 0.53
87 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (85 bp):
TGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTAGATTACATGTAAGACCACGCC
TAGGACATTGGCATCATGTT
Found at i:92537389 original size:43 final size:43
Alignment explanation
Indices: 92537219--92537390 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
92537209 CATAGGATTC
* * *
92537219 CGATATGTGATTTCGTGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
92537262 CGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* **
92537306 C-ATGTTTGATTTTGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * *
92537348 CGATATTTGATTACATGTAAGACCACGCCTAGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
92537391 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 30 0.29
43 41 0.39
44 33 0.32
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:92542331 original size:49 final size:49
Alignment explanation
Indices: 92542209--92542381 Score: 147
Period size: 49 Copynumber: 3.5 Consensus size: 49
92542199 GACGAGAGCT
* * * * *
92542209 AGTGTAAGACATGTCTGGGACAT-GCATCAACCT--CGAGATAAAAAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCACTAGAT--GAAAGCC
* * * * * *
92542257 AGTGTAAGACATGTCTGGGATATGGCTTTGACACTGA-TAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCACTAGATGAAAGCC
* * * *
92542306 AGTGTAAAACCTGTCTTGGACATGGCATCGGCCTCACTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCACTAGATGAAAGCC
92542355 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
92542382 GTCGGCATCT
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
48 25 0.25
49 54 0.55
50 16 0.16
51 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCACTAGATGAAAGCC
Found at i:92543415 original size:28 final size:28
Alignment explanation
Indices: 92543346--92543415 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
92543336 AAGGTTTTTA
*
92543346 GACACGGGCATGTAATGGCTGTGTGAGG
1 GACACGGGCATGTGATGGCTGTGTGAGG
*
92543374 GACACGGGCATGTGATGGCTGTGTGGGG
1 GACACGGGCATGTGATGGCTGTGTGAGG
*
92543402 GACACGGGCGTGTG
1 GACACGGGCATGTG
92543416 TCAGGCCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.17, C:0.16, G:0.47, T:0.20
Consensus pattern (28 bp):
GACACGGGCATGTGATGGCTGTGTGAGG
Found at i:92549656 original size:39 final size:41
Alignment explanation
Indices: 92549561--92549744 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
92549551 TTGAATGATG
*
92549561 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
92549600 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
92549640 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
92549679 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* * *
92549719 ACCGGGCGATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
92549745 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 19
0.81 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 60 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:92549696 original size:79 final size:81
Alignment explanation
Indices: 92549561--92549744 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
92549551 TTGAATGATG
92549561 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
92549624 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
92549639 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
92549700 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* * *
92549719 ACCGGGCGATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
92549745 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 11 0.12
79 57 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:92549766 original size:79 final size:79
Alignment explanation
Indices: 92549613--92549777 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
92549603 GGACTAAGAT
* * ** *
92549613 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCGAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
92549678 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
92549692 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCGATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCGAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
92549754 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
92549771 CCGAAGG
1 CCGAAGG
92549778 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCGAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:92553140 original size:49 final size:49
Alignment explanation
Indices: 92553032--92553213 Score: 163
Period size: 49 Copynumber: 3.7 Consensus size: 49
92553022 GACGCGAGCT
* ** * * *
92553032 AGTGTAAGACATGTCTGGGACAT-ATATCGACCTCGAC-A-TTGATAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATC-ACTAGATGA-AAGCC
* ** *
92553080 AGTGTAAGACCTGTCTGGGACATGGCATTGACATCGGTAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCACTAGATGAAAGCC
* * * *
92553129 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCACTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCACTAGATGAAAGCC
* * *
92553178 AGTGTAAAACCATGTCTGGGACATGGCGTCGGCATC
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACATC
92553214 TTAGCCCATG
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
48 22 0.20
49 62 0.57
50 24 0.22
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACATCACTAGATGAAAGCC
Found at i:92553210 original size:50 final size:49
Alignment explanation
Indices: 92553075--92553213 Score: 170
Period size: 49 Copynumber: 2.8 Consensus size: 49
92553065 CGACATTGAT
* * * **
92553075 AAGCTAGTGTAAGACCTGTCTGGGACATGGCATTGACATCGGTAGATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCACTAGATGA
* * * *
92553124 GAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCACTATATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCACTAGATGA
* *
92553173 AAGCCAGTGTAAAACCATGTCTGGGACATGGCGTCGGCATC
1 AAGCCAGTGTAAGACC-TGTCTGGGACATGGCATCGGCATC
92553214 TTAGCCCATG
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 54 0.72
50 21 0.28
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCATCACTAGATGA
Found at i:92556116 original size:14 final size:14
Alignment explanation
Indices: 92556097--92556126 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
92556087 TGATTGTTTT
92556097 TAATCTAATTTAAC
1 TAATCTAATTTAAC
92556111 TAATCTAATTTAAC
1 TAATCTAATTTAAC
92556125 TA
1 TA
92556127 CGAACACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATCTAATTTAAC
Found at i:92565209 original size:43 final size:42
Alignment explanation
Indices: 92565114--92565222 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
92565104 TCGATGCCTT
* *
92565114 TGTCCCAGACAGGGTCTTACACGAAATCAGATACGATACCGA
1 TGTCCCAGACACGGTCTTACACGAAATCAGATACGAGACCGA
* * *
92565156 TGTCCTAGACATGGTCTTATACGTAAATCCCA-AT-CGAGACCTG-
1 TGTCCCAGACACGGTCTTACACG-AAAT--CAGATACGAGACC-GA
92565199 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
92565223 CGTCTCAGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 21 0.38
43 30 0.54
44 3 0.05
45 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATCAGATACGAGACCGA
Found at i:92570090 original size:37 final size:37
Alignment explanation
Indices: 92570031--92570139 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
92570021 AGCTCAGACG
* * *
92570031 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
92570068 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
92570105 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
92570140 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:92570410 original size:47 final size:47
Alignment explanation
Indices: 92570348--92570538 Score: 310
Period size: 47 Copynumber: 4.1 Consensus size: 47
92570338 ACACGTTTCG
* * **
92570348 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
* *
92570395 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
92570442 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
* *
92570489 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
92570536 CAT
1 CAT
92570539 AAAATCCTAA
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 136 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATACGCATGTTCACATTCATCA
Found at i:92570466 original size:22 final size:22
Alignment explanation
Indices: 92570438--92570512 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
92570428 GTTCACATTC
92570438 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
92570460 ATCACATAT-ACGCATGTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
92570484 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
92570507 ATCACA
1 ATCACA
92570513 CATACGCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:92575574 original size:21 final size:21
Alignment explanation
Indices: 92575501--92575576 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
92575491 CACCTATTAA
92575501 TAATATTACAT-AAACATATACC
1 TAATATTA-ATAAAACATATA-C
* *
92575523 T-ATATGTATTAAAGATATATAC
1 TAATAT-TAATAAA-ACATATAC
92575545 ATAA-A-TAATAAAACATATAC
1 -TAATATTAATAAAACATATAC
92575565 TAATATTAATAA
1 TAATATTAATAA
92575577 TAATTTGGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 15
0.69 0.06 0.24
Matches are distributed among these distances:
19 3 0.07
20 8 0.19
21 17 0.40
22 6 0.14
23 8 0.19
24 1 0.02
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (21 bp):
TAATATTAATAAAACATATAC
Found at i:92577502 original size:41 final size:40
Alignment explanation
Indices: 92577457--92577538 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 40
92577447 CTGAATGGAT
*
92577457 ACAATCGCGATATGATCAGTTGAACTTGATTGAGGGAAAG
1 ACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAG
92577497 NACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAG
1 -ACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAG
92577538 A
1 A
92577539 GGCTAAGGGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.24
Consensus pattern (40 bp):
ACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAG
Found at i:92579079 original size:44 final size:44
Alignment explanation
Indices: 92579025--92579221 Score: 195
Period size: 44 Copynumber: 4.4 Consensus size: 44
92579015 GATCTAAGAT
* *
92579025 GATTTGGCATCTCTGTATTGTCAGAGAGCGAATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAAATCCAAGATAGCA
* * *
92579069 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAAATCCAAGATAGCA
* *
92579113 GATTTGGCATCT-TCGTATTTTGACGAAGAGCAAATCCAAGAT-GACA
1 GATTTGGCATCTCT-GTATTGTCA-G-AGAGCAAATCCAAGATAG-CA
* * * * * *
92579159 GATTTGGTATCTCCGTATTCGACGGGGAGCAAAACCAAGA-AG-A
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAAATCCAAGATAGCA
92579202 TGATTTGGCATCTCTGTATT
1 -GATTTGGCATCTCTGTATT
92579222 TGACGGGGAG
Statistics
Matches: 127, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
43 2 0.02
44 77 0.61
45 16 0.13
46 32 0.25
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAAATCCAAGATAGCA
Found at i:92579207 original size:90 final size:88
Alignment explanation
Indices: 92579020--92579252 Score: 233
Period size: 90 Copynumber: 2.6 Consensus size: 88
92579010 AAGCAGATCT
* * * *
92579020 AAGATGATTTGGCATCTCTGTATTGTCA-GAGAGCGAATCGAAGATAGCAGATTTGGCATCTCTG
1 AAGATGATTTGGCATCTCTGTATTTTGACGAGAGCAAATCGAAGATAGCAGATTTGGCATCTCCG
* * * *
92579084 TATTGTCAGAGAGCAGATCGAAG
66 TATTGACAGAGAGCAAAACCAAG
* *
92579107 ATAG-TAGATTTGGCATCT-TCGTATTTTGACGAAGAGCAAATCCAAGAT-GACAGATTTGGTAT
1 A-AGAT-GATTTGGCATCTCT-GTATTTTGACG-AGAGCAAATCGAAGATAG-CAGATTTGGCAT
* *
92579169 CTCCGTATTCGACGGGGAGCAAAACCAAG
61 CTCCGTATT-GACAGAGAGCAAAACCAAG
*
92579198 AAGATGATTTGGCATCTCTGTA-TTTGACGGGGAGCAAATCGAAGACATAGCAGAT
1 AAGATGATTTGGCATCTCTGTATTTTGAC-GAGAGCAAATCGAAG--ATAGCAGAT
92579253 CTGACCTTTG
Statistics
Matches: 119, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
87 3 0.03
88 21 0.18
89 20 0.17
90 51 0.43
91 23 0.19
92 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (88 bp):
AAGATGATTTGGCATCTCTGTATTTTGACGAGAGCAAATCGAAGATAGCAGATTTGGCATCTCCG
TATTGACAGAGAGCAAAACCAAG
Found at i:92579227 original size:44 final size:44
Alignment explanation
Indices: 92579020--92579242 Score: 186
Period size: 44 Copynumber: 5.0 Consensus size: 44
92579010 AAGCAGATCT
* * * *
92579020 AAGATGATTTGGCATCTCTGTA-TTGTCAGAGAGCGAATCGAAG
1 AAGATGATTTGGCATCTCTGTATTTGACGGAGAGCAAATCCAAG
* * * *
92579063 ATAGCA-GATTTGGCATCTCTGTA-TTGTCAGAGAGCAGATCGAAG
1 A-AG-ATGATTTGGCATCTCTGTATTTGACGGAGAGCAAATCCAAG
*
92579107 ATAG-TAGATTTGGCATCT-TCGTATTTTGACGAAGAGCAAATCCAAG
1 A-AGAT-GATTTGGCATCTCT-GTA-TTTGACGGAGAGCAAATCCAAG
* * * * * * *
92579153 ATGACAGATTTGGTATCTCCGTATTCGACGGGGAGCAAAACCAAG
1 AAGA-TGATTTGGCATCTCTGTATTTGACGGAGAGCAAATCCAAG
* *
92579198 AAGATGATTTGGCATCTCTGTATTTGACGGGGAGCAAATCGAAG
1 AAGATGATTTGGCATCTCTGTATTTGACGGAGAGCAAATCCAAG
92579242 A
1 A
92579243 CATAGCAGAT
Statistics
Matches: 148, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
43 2 0.01
44 92 0.62
45 23 0.16
46 31 0.21
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (44 bp):
AAGATGATTTGGCATCTCTGTATTTGACGGAGAGCAAATCCAAG
Found at i:92579392 original size:80 final size:79
Alignment explanation
Indices: 92579198--92579401 Score: 266
Period size: 80 Copynumber: 2.6 Consensus size: 79
92579188 CAAAACCAAG
* *
92579198 AAGATGATTT-GGCATCTCTGTATTTGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTT
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTC
* *
92579262 GTTGAGGCAGATCC
66 ATTAAGGCAGATCC
* * * * *
92579276 AATATGATTTGGGCATCTTTGTAATGGACGGAGAGCAAATCGAAGACATTAGCAGATCTGACCTT
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGACA-TAGCAGATCTGACCTT
* *
92579341 CATTAAGGCTGATTC
65 CATTAAGGCAGATCC
* * *
92579356 AAGATGATTTGGGCGTCTCTGTATTCAACGGGGAGCAGATCGAAGA
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGA
92579402 ACTCAAGACT
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 9 0.08
79 33 0.31
80 64 0.60
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (79 bp):
AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTC
ATTAAGGCAGATCC
Found at i:92580914 original size:53 final size:54
Alignment explanation
Indices: 92580857--92580969 Score: 126
Period size: 53 Copynumber: 2.1 Consensus size: 54
92580847 TAAATCTTAT
92580857 TTATATAAAATAATATATATTATTATATAC-ATCT-T-TATAAATTTTATTATATG
1 TTATATAAAATAATATATATTATT-TATACTAT-TATGTATAAATTTTATTATATG
*** * * *
92580910 TTATAT-TTTTAATATATATTATTTATTCTATTATGTTTATATTTTATTATATG
1 TTATATAAAATAATATATATTATTTATACTATTATGTATAAATTTTATTATATG
92580963 TTATATA
1 TTATATA
92580970 TTTTTACTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
51 5 0.10
52 17 0.34
53 28 0.56
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (54 bp):
TTATATAAAATAATATATATTATTTATACTATTATGTATAAATTTTATTATATG
Found at i:92580957 original size:21 final size:19
Alignment explanation
Indices: 92580891--92580973 Score: 93
Period size: 18 Copynumber: 4.6 Consensus size: 19
92580881 ATATACATCT
*
92580891 TTATAAATTTTATTATATG
1 TTATATATTTTATTATATG
* *
92580910 TTATAT-TTTTAATATATA
1 TTATATATTTTATTATATG
* *
92580928 TTATTTATTCTA-T-TATG
1 TTATATATTTTATTATATG
92580945 TT-TATATTTTATTATATG
1 TTATATATTTTATTATATG
92580963 TTATATATTTT
1 TTATATATTTT
92580974 TACTATATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.13
17 6 0.12
18 22 0.42
19 17 0.33
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (19 bp):
TTATATATTTTATTATATG
Found at i:92580989 original size:53 final size:53
Alignment explanation
Indices: 92580869--92580991 Score: 151
Period size: 55 Copynumber: 2.3 Consensus size: 53
92580859 ATATAAAATA
92580869 ATATATATTATTATATACATCTTTATAAATTTTATTATATGTTATATTTTTAAT
1 ATATATATTATTATATACATCTTTAT-AATTTTATTATATGTTATATTTTTAAT
* * * *
92580923 ATATATTATTTATTCTAT-TATGTTTAT-ATTTTATTATATGTTATATATTTTTACT
1 ATATA-TA-TTATTATATACATCTTTATAATTTTATTATATG-T-TATATTTTTAAT
92580978 ATATATATTATTAT
1 ATATATATTATTAT
92580992 TTATTTTACC
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
53 19 0.32
54 8 0.13
55 25 0.42
56 8 0.13
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (53 bp):
ATATATATTATTATATACATCTTTATAATTTTATTATATGTTATATTTTTAAT
Found at i:92581009 original size:53 final size:53
Alignment explanation
Indices: 92580897--92581009 Score: 135
Period size: 53 Copynumber: 2.1 Consensus size: 53
92580887 ATCTTTATAA
* *
92580897 ATTTTATTATATGTTATATTTTTAATATATATTATTTATTCTATTATGTTTAT
1 ATTTTATTATATGTTATATTTTTAATATATATTATTTATTATATTATGTTTAC
*
92580950 ATTTTATTATATGTTATATATTTTTACTATATA-TA-TTATTAT-TTAT-TTTACC
1 ATTTTATTATATG-T-TATATTTTTAATATATATTATTTATTATATTATGTTTA-C
92581002 ATATTTAT
1 AT-TTTAT
92581010 ATGTAAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
51 4 0.08
52 6 0.11
53 24 0.45
54 3 0.06
55 16 0.30
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.63
Consensus pattern (53 bp):
ATTTTATTATATGTTATATTTTTAATATATATTATTTATTATATTATGTTTAC
Found at i:92581009 original size:60 final size:53
Alignment explanation
Indices: 92580867--92581011 Score: 134
Period size: 60 Copynumber: 2.6 Consensus size: 53
92580857 TTATATAAAA
* *
92580867 TAATATATATTA-TTA-TATA-CATCTTTATAAATTTTATTATATGTTATATTTT
1 TAATATATATTATTTATTCTACCATATTTAT--ATTTTATTATATGTTATATTTT
** *
92580919 TAATATATATTATTTATTCTATTATGTTTATATTTTATTATATGTTATATATTTTT
1 TAATATATATTATTTATTCTACCATATTTATATTTTATTATATG-T-TATA-TTTT
*
92580975 ACTATATATATTATTATTTATTTTACCATATTTATAT
1 --TA-ATATA-TATTATTTATTCTACCATATTTATAT
92581012 GTAAAATATT
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
52 12 0.16
53 16 0.21
54 4 0.05
55 11 0.14
56 4 0.05
58 2 0.03
59 5 0.07
60 22 0.29
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (53 bp):
TAATATATATTATTTATTCTACCATATTTATATTTTATTATATGTTATATTTT
Found at i:92581105 original size:42 final size:42
Alignment explanation
Indices: 92581024--92581113 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
92581014 AAAATATTTA
** *
92581024 TTATATCATTTTTATTATTTTATACTTTATCTATTATATGTT
1 TTATATCATTTTTATTATTTTATAAATTATCTATCATATGTT
*
92581066 TTATATCATTATTTATTTTGTTTATAAATT-T-TATCATATGTT
1 TTATATCATT-TTTATTAT-TTTATAAATTATCTATCATATGTT
*
92581108 ATATAT
1 TTATAT
92581114 TTTACTATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 25 0.61
43 8 0.20
44 8 0.20
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (42 bp):
TTATATCATTTTTATTATTTTATAAATTATCTATCATATGTT
Found at i:92582622 original size:26 final size:25
Alignment explanation
Indices: 92582593--92582648 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
92582583 TGTAACTCCT
* *
92582593 TTTTTTATACTAAAATATTATTTTTG
1 TTTTTTA-AATAAAATATTATTTTTA
92582619 TTTTTTAAATAAAATATTATTTTTA
1 TTTTTTAAATAAAATATTATTTTTA
92582644 TTTTT
1 TTTTT
92582649 ATTAAAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTTTAAATAAAATATTATTTTTA
Found at i:92586137 original size:77 final size:78
Alignment explanation
Indices: 92585971--92586140 Score: 202
Period size: 78 Copynumber: 2.2 Consensus size: 78
92585961 GTTTTGTAAT
* * * * *
92585971 ATAAATAACTTCATATTTATGTAATGAATTTTTTGACATTTTATTTATCAATTTAATTTGTTTTT
1 ATAAATAACTTTATATTAATGTAACGAATTTTTTGACATTTTATTTATCAATTTAATTGGGTTTT
92586036 TTTTACAATTTAA
66 TTTTACAATTTAA
* * * * *
92586049 AT-AGTCAACTTTGTATTAATGTAACGACTTTTTTGCCATTTTATTT-TCAATTTTA-TGGGTTT
1 ATAAAT-AACTTTATATTAATGTAACGAATTTTTTGACATTTTATTTATCAATTTAATTGGGTTT
*
92586111 TTTTTGCAATTTAA
65 TTTTTACAATTTAA
92586125 ATAAATAAACTTTATA
1 ATAAAT-AACTTTATA
92586141 ATAACTATGT
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
76 20 0.26
77 20 0.26
78 36 0.47
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (78 bp):
ATAAATAACTTTATATTAATGTAACGAATTTTTTGACATTTTATTTATCAATTTAATTGGGTTTT
TTTTACAATTTAA
Found at i:92590751 original size:27 final size:27
Alignment explanation
Indices: 92590720--92590897 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
92590710 TAAATTGTAC
92590720 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
92590747 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
92590773 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
92590801 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
92590829 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
92590856 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
92590883 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
92590898 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:92590834 original size:82 final size:81
Alignment explanation
Indices: 92590721--92590876 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
92590711 AAATTGTACA
* *
92590721 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
92590785 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
92590802 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
92590867 TGCGAGTTGA
65 TGCGAATTGA
92590877 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:92590888 original size:82 final size:81
Alignment explanation
Indices: 92590717--92590897 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
92590707 GATTAAATTG
* *
92590717 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
92590782 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
92590798 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
92590862 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
92590880 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
92590898 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:92606162 original size:27 final size:27
Alignment explanation
Indices: 92606132--92606201 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
92606122 ATTGCGTTTG
* * *
92606132 TCAGAGAGGCTCAACTAGTCGCGCCTA
1 TCAGAGAGACACAACCAGTCGCGCCTA
* *
92606159 TCAGATAGACACAACCATTCGCGCCTA
1 TCAGAGAGACACAACCAGTCGCGCCTA
* * *
92606186 CCAGATAGACGCAACC
1 TCAGAGAGACACAACC
92606202 TATATACCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.16
Consensus pattern (27 bp):
TCAGAGAGACACAACCAGTCGCGCCTA
Found at i:92606408 original size:16 final size:16
Alignment explanation
Indices: 92606384--92606419 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
92606374 ATTTCAGTAT
*
92606384 ATAATTTGATAGACTA
1 ATAAGTTGATAGACTA
92606400 ATAAGTTGATAGACTA
1 ATAAGTTGATAGACTA
92606416 ATAA
1 ATAA
92606420 AATCAGCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (16 bp):
ATAAGTTGATAGACTA
Found at i:92606568 original size:15 final size:16
Alignment explanation
Indices: 92606541--92606572 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
92606531 TGTCATCAAA
92606541 AAATATATTAAAAAAT
1 AAATATATTAAAAAAT
92606557 AAATAT-TTAAAAAAT
1 AAATATATTAAAAAAT
92606572 A
1 A
92606573 GTTATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATATATTAAAAAAT
Found at i:92607183 original size:18 final size:19
Alignment explanation
Indices: 92607146--92607184 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
92607136 AATACAAAAT
*
92607146 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
92607165 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
92607183 AA
1 AA
92607185 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:92618423 original size:18 final size:18
Alignment explanation
Indices: 92618400--92618437 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
92618390 CTGATGATAT
92618400 TGACGACAAAGACGTGAA
1 TGACGACAAAGACGTGAA
**
92618418 TGACGATGAAGACGTGAA
1 TGACGACAAAGACGTGAA
92618436 TG
1 TG
92618438 GCGATGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (18 bp):
TGACGACAAAGACGTGAA
Found at i:92618442 original size:18 final size:18
Alignment explanation
Indices: 92618408--92618443 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
92618398 ATTGACGACA
92618408 AAGACGTGAATGACGATG
1 AAGACGTGAATGACGATG
*
92618426 AAGACGTGAATGGCGATG
1 AAGACGTGAATGACGATG
92618444 GAAACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.36, T:0.17
Consensus pattern (18 bp):
AAGACGTGAATGACGATG
Found at i:92622749 original size:15 final size:16
Alignment explanation
Indices: 92622723--92622752 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
92622713 TATTAGTTTC
92622723 ATATTATTTTATGTAA
1 ATATTATTTTATGTAA
92622739 ATATT-TTTTATGTA
1 ATATTATTTTATGTA
92622753 TACTTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
ATATTATTTTATGTAA
Found at i:92623199 original size:18 final size:18
Alignment explanation
Indices: 92623149--92623199 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
92623139 ATTATGTACA
* *
92623149 TTATATCTTATTATGTGTT
1 TTATATATTATT-TATGTT
*
92623168 TTAT-TATTCTTTTATGTT
1 TTATATATT-ATTTATGTT
92623186 TTATATATTATTTA
1 TTATATATTATTTA
92623200 AGCTATCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATATATTATTTATGTT
Found at i:92634350 original size:49 final size:51
Alignment explanation
Indices: 92634278--92634429 Score: 184
Period size: 53 Copynumber: 3.0 Consensus size: 51
92634268 AGGGAAGGAA
* *
92634278 GCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACTACA-AAAAA-AAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAAAAAGAAAGG
* * *
92634327 GCCAAAGTGAAATCCCGCAAAGGGCACTTTGAGACCAAATAAAAATGGAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAAAAA--GAAAGG
** *
92634380 GCCAAAGAAAAAACCCGCAAAGGGCGCTTTGAGACTCAATAATAAA-AAAG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAA-AAAGAAAG
92634430 AAAGAAAAAG
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
49 34 0.39
50 5 0.06
51 4 0.05
53 41 0.47
54 3 0.03
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (51 bp):
GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAAAAAGAAAGG
Found at i:92634440 original size:53 final size:53
Alignment explanation
Indices: 92634340--92634446 Score: 121
Period size: 53 Copynumber: 2.0 Consensus size: 53
92634330 AAAGTGAAAT
* **
92634340 CCCGCAAAGGGCACTTTGAGACCAAATAAAAATGGAAAGGGCCAAAGA-AAAAA
1 CCCGCAAAGGGCACTTTGAGACCAAATAAAAATAGAAA-GGAAAAAGAGAAAAA
*
92634393 CCCGCAAAGGGCGCTTTGAGACTCAATAATAAAAA-AGAAA-GAAAAAGAGAAAAA
1 CCCGCAAAGGGCACTTTGAGAC-C-A-AATAAAAATAGAAAGGAAAAAGAGAAAAA
92634447 GGAGAGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
53 27 0.59
54 6 0.13
55 5 0.11
56 8 0.17
ACGTcount: A:0.51, C:0.17, G:0.21, T:0.10
Consensus pattern (53 bp):
CCCGCAAAGGGCACTTTGAGACCAAATAAAAATAGAAAGGAAAAAGAGAAAAA
Found at i:92635432 original size:15 final size:16
Alignment explanation
Indices: 92635406--92635435 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
92635396 TATTAGTTTC
92635406 ATATTATTTTATGTAA
1 ATATTATTTTATGTAA
92635422 ATATT-TTTTATGTA
1 ATATTATTTTATGTA
92635436 TACTTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
ATATTATTTTATGTAA
Found at i:92638780 original size:68 final size:64
Alignment explanation
Indices: 92638670--92638820 Score: 171
Period size: 68 Copynumber: 2.3 Consensus size: 64
92638660 ATACAGATGG
* * * *
92638670 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAG-ACAAGAGAGCTACGAG--A
92638734 TTA
63 -TA
* *
92638737 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGAGAT
1 T-ATGTAGCTAGGTCACATGGATGATACTGA-GTGCACACCATGTAGACAAGAGAGCTACGAGAT
92638801 A
64 A
*
92638802 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCACATG
92638821 CGTGGTTCCA
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
64 17 0.23
65 3 0.04
66 1 0.01
67 2 0.03
68 50 0.68
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:92648292 original size:8 final size:8
Alignment explanation
Indices: 92648281--92648306 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
92648271 TAATTTGGTA
92648281 AATTAAAT
1 AATTAAAT
92648289 AATTAAAT
1 AATTAAAT
92648297 AATTAAAT
1 AATTAAAT
92648305 AA
1 AA
92648307 GAAAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTAAAT
Found at i:92650713 original size:47 final size:47
Alignment explanation
Indices: 92650634--92650727 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
92650624 AGTTCTCTAA
92650634 GTTATTAGTTTAGTCCTGAACCACTTCCAAAGCATGTTTTGGGCCTC
1 GTTATTAGTTTAGTCCTGAACCACTTCCAAAGCATGTTTTGGGCCTC
* *
92650681 GTTATTAGTTTAGTCCTGAACCTC-TCCTAAAGCGTGTTTTGGGCCTC
1 GTTATTAGTTTAGTCCTGAACCACTTCC-AAAGCATGTTTTGGGCCTC
92650728 ATAGGCTCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 3 0.07
47 41 0.93
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (47 bp):
GTTATTAGTTTAGTCCTGAACCACTTCCAAAGCATGTTTTGGGCCTC
Found at i:92653212 original size:22 final size:22
Alignment explanation
Indices: 92653171--92653229 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
92653161 GTTTTAAGAA
* *
92653171 TTGTTTTAGTA-TCATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
92653192 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
92653214 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
92653230 GATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.48
22 10 0.30
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.68
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:92653228 original size:20 final size:22
Alignment explanation
Indices: 92653184--92653229 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
92653174 TTTTAGTATC
* *
92653184 ATTTTTATTTGTTTTAATATTT
1 ATTTTTATGTGTTTTAATATAT
92653206 ATTTTTATGT-TTTTAA-ATAT
1 ATTTTTATGTGTTTTAATATAT
92653226 ATTT
1 ATTT
92653230 GATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTTTATGTGTTTTAATATAT
Found at i:92653246 original size:26 final size:24
Alignment explanation
Indices: 92653200--92653248 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
92653190 ATTTGTTTTA
*
92653200 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
92653224 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
92653249 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:92653259 original size:25 final size:26
Alignment explanation
Indices: 92653203--92653260 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
92653193 TGTTTTAATA
*
92653203 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
92653228 TTGATTTATTATATTTTTAAA-ATTT
1 TTTATTTATTATATTTTTAAATATAT
92653253 TTTATTTA
1 TTTATTTA
92653261 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:92656180 original size:31 final size:30
Alignment explanation
Indices: 92656142--92656206 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 30
92656132 CCACGTGGGA
*
92656142 AACCGAGGAAGCTATGAGAAAATAGTACCC
1 AACCGAGGAAGCTATGAGAAAACAGTACCC
92656172 TAACCGAGGAAGCTATGAGAAAACAGTACCC
1 -AACCGAGGAAGCTATGAGAAAACAGTACCC
92656203 AACC
1 AACC
92656207 TATTTTCTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (30 bp):
AACCGAGGAAGCTATGAGAAAACAGTACCC
Found at i:92659757 original size:64 final size:64
Alignment explanation
Indices: 92659657--92659816 Score: 241
Period size: 64 Copynumber: 2.5 Consensus size: 64
92659647 TGAGTTTATG
* *
92659657 TAATTTATATAAAATAAATTTTATATTACAAGGTTTGTTCCAATTAGATTAATG-TTGTAATGTA
1 TAATTTATATAACA-AAA-TTTATATTACAAAGTTTGTTCCAATTAGATT-ATGATTGTAATGTA
92659721 TT
63 TT
92659723 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGATTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGATTGTAATGTATT
* * *
92659787 TAATTTATATAACATATTTTATGTTACAAA
1 TAATTTATATAACAAAATTTATATTACAAA
92659817 ACTAAGTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
63 3 0.03
64 69 0.78
65 3 0.03
66 13 0.15
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (64 bp):
TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGATTGTAATGTATT
Found at i:92662192 original size:111 final size:109
Alignment explanation
Indices: 92662020--92662236 Score: 346
Period size: 111 Copynumber: 2.0 Consensus size: 109
92662010 AAACAAAAAA
*
92662020 TTTATATTAAAATACTAAAAATAATATGCCAATAAAAAAACATAACATAAAAGATACATAATAAA
1 TTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAACATAACATAAAAGATACATAATAAA
* *
92662085 TACAAATATTTTTATTATTATTTTAAAATGATAGA-AAGTAAGTT
66 TAAAAATATTTTTATTATTACTTTAAAATGATA-ATAAGTAAGTT
* * *
92662129 TTTATATTAAAAATACTAAGAATAACATGTCAATAACAAAAACATAACATAAACGATACATAATA
1 TTTATATT-AAAATACTAAAAATAACATGCCAATAA-AAAAACATAACATAAAAGATACATAATA
92662194 AATAAAAATATTTTTATTATTACTTTAAAATGATAATAAGTAA
64 AATAAAAATATTTTTATTATTACTTTAAAATGATAATAAGTAA
92662237 ATATTTTTGG
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
109 8 0.08
110 25 0.25
111 66 0.67
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (109 bp):
TTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAACATAACATAAAAGATACATAATAAA
TAAAAATATTTTTATTATTACTTTAAAATGATAATAAGTAAGTT
Found at i:92662942 original size:20 final size:20
Alignment explanation
Indices: 92662917--92662957 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
92662907 CCACCCTCTC
*
92662917 CTTCTCTTTCT-TCTTCTTCT
1 CTTCTCCTTCTCT-TTCTTCT
92662937 CTTCTCCTTCTCTTTCTTCT
1 CTTCTCCTTCTCTTTCTTCT
92662957 C
1 C
92662958 CTTTACTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (20 bp):
CTTCTCCTTCTCTTTCTTCT
Found at i:92662957 original size:15 final size:15
Alignment explanation
Indices: 92662913--92662960 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
92662903 CTACCCACCC
92662913 TCTCCTTCTCTTTC-
1 TCTCCTTCTCTTTCT
*
92662927 T-T-CTTCT-TCTCT
1 TCTCCTTCTCTTTCT
92662939 TCTCCTTCTCTTTCT
1 TCTCCTTCTCTTTCT
92662954 TCTCCTT
1 TCTCCTT
92662961 TACTCACGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 3 0.11
12 6 0.21
13 2 0.07
14 6 0.21
15 11 0.39
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTCCTTCTCTTTCT
Found at i:92666194 original size:46 final size:46
Alignment explanation
Indices: 92666083--92666213 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 46
92666073 TAATATTTCA
* * * *
92666083 TATTCTTTAGTCCGCAACATATGTAAGAGTTGGGAACCTAAATTTG
1 TATTCTTCAGTCCGCAACATATGTAAGAGCTAGGAACCTAAATTCG
* ** *
92666129 TATTCTTCAGCCCATAACATATGTACGAGCTAGGAACCTAAATTCG
1 TATTCTTCAGTCCGCAACATATGTAAGAGCTAGGAACCTAAATTCG
* *
92666175 TATTC-TCGAGTCCGCAACATATGTAGGAGCTAGCAACCT
1 TATTCTTC-AGTCCGCAACATATGTAAGAGCTAGGAACCT
92666214 GGACAAAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 2 0.03
46 69 0.97
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (46 bp):
TATTCTTCAGTCCGCAACATATGTAAGAGCTAGGAACCTAAATTCG
Found at i:92670895 original size:48 final size:47
Alignment explanation
Indices: 92670758--92670925 Score: 129
Period size: 48 Copynumber: 3.6 Consensus size: 47
92670748 CGCATAGTAT
*
92670758 GATGCCAATGCCATATCCCAGATATGTTCTTACATGGGAT-C--ATA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCCATATA
* *
92670802 GAT-CGAAGTTG--ATAGT-CCAGCTATGGTCTTACAT--GATGCCTCATATA
1 GATGCCAA--TGCCATA-TCCCAGATATGGTCTTACATGGGAT--C-CATATA
* *
92670849 GTTGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATC-CATATA
* ** *
92670897 GATGCCAAAGCCATGGCCCAGACATGGTC
1 GATGCCAATGCCATATCCCAGATATGGTC
92670926 ATCAGGATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
41 3 0.03
43 22 0.23
44 4 0.04
45 3 0.03
46 2 0.02
47 6 0.06
48 53 0.55
50 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (47 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCCATATA
Found at i:92678063 original size:43 final size:44
Alignment explanation
Indices: 92677992--92678126 Score: 193
Period size: 43 Copynumber: 3.1 Consensus size: 44
92677982 TATCGAAATG
*
92677992 TGATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
92678036 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATGATGCCGGTGAAA
1 TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
92678079 T-ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATTCG-GGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
92678124 TGA
1 TGA
92678127 AATGTTATGT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
42 1 0.01
43 37 0.47
44 8 0.10
45 32 0.41
46 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:92678453 original size:38 final size:38
Alignment explanation
Indices: 92678396--92678587 Score: 185
Period size: 38 Copynumber: 5.1 Consensus size: 38
92678386 ATGATATTTG
* **
92678396 TATCCGGATTAAAGACCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCATGCTGGAATTA
** *
92678434 TATATGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGG-AATTA
*
92678472 TATCCGGATTAAATCCC-CAGGCTTCATGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGG-AATTA
* * * * *
92678509 TATCCGGGTTAATTCCCGCATGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
* * * *
92678547 TATCTGGGTTAAATCCCGCAGGCCTAATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
92678585 TAT
1 TAT
92678588 TCGGCCCTTT
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
37 36 0.28
38 89 0.70
39 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
Found at i:92678503 original size:75 final size:74
Alignment explanation
Indices: 92678396--92678587 Score: 215
Period size: 75 Copynumber: 2.5 Consensus size: 74
92678386 ATGATATTTG
* * *
92678396 TATCCGGATTAAAGACCGCAGGCTATATGCTGGAATTATATATGGGTTAAATCCCGCAGGCTTCG
1 TATCCGGATTAAA-TCCCCAGGCT-TATGCTGGAATTATATACGGGTTAAATCCCGCAGGCTTCG
*
92678461 TGCTGGTAATA
64 TGCTAGTAATA
* * *
92678472 TATCCGGATTAAATCCCCAGGCTTCATGCTGGTAA-TATATCCGGGTTAATTCCCGCATGCTTCG
1 TATCCGGATTAAATCCCCAGGCTT-ATGCTGG-AATTATATACGGGTTAAATCCCGCAGGCTTCG
*
92678536 TGCTAGTATTA
64 TGCTAGTAATA
* * * *
92678547 TATCTGGGTTAAATCCCGCAGGCCTAATGCTGGTATTATAT
1 TATCCGGATTAAATCCC-CAGG-CTTATGCTGGAATTATAT
92678588 TCGGCCCTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
74 1 0.01
75 65 0.66
76 31 0.31
77 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (74 bp):
TATCCGGATTAAATCCCCAGGCTTATGCTGGAATTATATACGGGTTAAATCCCGCAGGCTTCGTG
CTAGTAATA
Found at i:92678710 original size:45 final size:45
Alignment explanation
Indices: 92678585--92678710 Score: 175
Period size: 45 Copynumber: 2.8 Consensus size: 45
92678575 GCTGGTATTA
* * * *
92678585 TATTCGGCCCTTT-GAGCCTAGCAGGTTATTATGCCAGTGAGACAC
1 TATTCGG-GCTTTGGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
*
92678630 TATTCGGGCCTTTGG-GCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGG-CTTTGGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
92678675 TATTCGGGCTTTGGAGCCTAGCAGGCTATAATGCCG
1 TATTCGGGCTTTGGAGCCTAGCAGGCTATAATGCCG
92678711 ATGAAATGAT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
44 6 0.08
45 66 0.90
46 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCTTTGGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:92678727 original size:45 final size:44
Alignment explanation
Indices: 92678594--92678728 Score: 139
Period size: 45 Copynumber: 3.0 Consensus size: 44
92678584 ATATTCGGCC
* * * * * *
92678594 CTTTGAGCCTAGCAGGTTATTATGCC-AGTGAGACACTATTCGGG
1 CTTTGGGCCTAGCAGGCTATAATGCCGA-TGAAATACTAATCGGG
* * *
92678638 CCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG
1 -CTTTGGGCCTAGCAGGCTATAATGCCGATGAAATACTAATCGGG
92678683 CTTTGGAGCCTAGCAGGCTATAATGCCGATGAAATGA-TAATCGGG
1 CTTTGG-GCCTAGCAGGCTATAATGCCGATGAAAT-ACTAATCGGG
92678728 C
1 C
92678729 CTCGATCCTA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
44 6 0.08
45 72 0.91
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (44 bp):
CTTTGGGCCTAGCAGGCTATAATGCCGATGAAATACTAATCGGG
Found at i:92681351 original size:46 final size:46
Alignment explanation
Indices: 92681301--92681394 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 46
92681291 AGTTAGAAGA
*
92681301 CTAAAT-TAGTATTCTCCAATCCACAACATATGCAGGAGCTGGTAAC
1 CTAAATCTA-TATTCTCCAATCCACAACATATGCAGGAGCTGGGAAC
* *
92681347 CTAAATCTATATTCTCCAATCTACCACATATGCAGGAGCTGGGAAC
1 CTAAATCTATATTCTCCAATCCACAACATATGCAGGAGCTGGGAAC
92681393 CT
1 CT
92681395 GAGCAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 42 0.95
47 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (46 bp):
CTAAATCTATATTCTCCAATCCACAACATATGCAGGAGCTGGGAAC
Found at i:92684424 original size:17 final size:17
Alignment explanation
Indices: 92684381--92684433 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
92684371 ACTCAATTCG
* *
92684381 AAAGATGGAAAAATGAAG
1 AAAGAT-GAAAAATAAAA
*
92684399 AAATA-GAAAAATAAAA
1 AAAGATGAAAAATAAAA
92684415 AAAGATGAAAAATATAAA
1 AAAGATGAAAAATA-AAA
92684433 A
1 A
92684434 TTTCATTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 13 0.45
17 8 0.28
18 8 0.28
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
AAAGATGAAAAATAAAA
Found at i:92698652 original size:42 final size:42
Alignment explanation
Indices: 92698575--92698705 Score: 131
Period size: 44 Copynumber: 3.0 Consensus size: 42
92698565 TTTTACATGT
* * * * *
92698575 AATCAAATATTGATGCCACTGTCCCAGATAGGGTCTTACACGA
1 AATCAAATA-CGATGCCAATGTTCCAGACATGGTCTTACACGA
*
92698618 AATCAAATACGATGCCAATGTTCCAGACATGGTCTTACACATA
1 AATCAAATACGATGCCAATGTTCCAGACATGGTCTTACAC-GA
* *
92698661 AATCATAAGT-CGATGCCAACG-TCCTAGACGTGGTCTTACACGA
1 AATCA-AA-TACGATGCCAATGTTCC-AGACATGGTCTTACACGA
92698704 AA
1 AA
92698706 ACACATATCG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
42 26 0.35
43 21 0.28
44 27 0.36
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTTCCAGACATGGTCTTACACGA
Found at i:92698695 original size:44 final size:42
Alignment explanation
Indices: 92698544--92698705 Score: 125
Period size: 43 Copynumber: 3.8 Consensus size: 42
92698534 AGCTCGTACA
** * * * *
92698544 ATGCCAAC-TTCCTAGATGTGGTTTTACATGTAATCAAATATTG
1 ATGCCAACGTTCC-AGACATGGTCTTACACGAAATCAAATA-CG
* * *
92698587 ATGCC-ACTGTCCCAGATAGGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTTCCAGACATGGTCTTACACGAAATCAAATACG
* *
92698629 ATGCCAATGTTCCAGACATGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACGTTCCAGACATGGTCTTACAC-GAAATCA-AA-TACG
*
92698673 ATGCCAACG-TCCTAGACGTGGTCTTACACGAAA
1 ATGCCAACGTTCC-AGACATGGTCTTACACGAAA
92698706 ACACATATCG
Statistics
Matches: 97, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
42 26 0.27
43 40 0.41
44 30 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCCAACGTTCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:92703531 original size:45 final size:45
Alignment explanation
Indices: 92703467--92703681 Score: 171
Period size: 45 Copynumber: 4.9 Consensus size: 45
92703457 TAGGATTCTA
* *
92703467 ATATGTGTTTCTGA-GTAAGACCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGTTT-TCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
92703512 ATATGTGTTTTCATGTAAGACTACGTTTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * * * * * *
92703557 TTATGTGGTTTCGTGTAAGACCATGTCTGGGACATTGACATTG-T
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
92703601 AT-T-TG-ATTCGA-GTAAGACC-CTATCTGGGACAG-TGGCATCG--
1 ATATGTGTTTTC-ATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* * **
92703641 ATATGAGATAGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCAT
92703682 TGTATGATAT
Statistics
Matches: 134, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
40 2 0.01
41 26 0.19
42 5 0.04
43 24 0.18
44 5 0.04
45 72 0.54
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (45 bp):
ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:92712681 original size:15 final size:15
Alignment explanation
Indices: 92712663--92712693 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
92712653 AAAACATATC
92712663 AATTCAACTTATTCA
1 AATTCAACTTATTCA
92712678 AATTCAACTTATTCA
1 AATTCAACTTATTCA
92712693 A
1 A
92712694 TCATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTCAACTTATTCA
Found at i:92723611 original size:19 final size:19
Alignment explanation
Indices: 92723587--92723626 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
92723577 ATAGAATTGT
92723587 TGCATGAACTTTGCCATGA
1 TGCATGAACTTTGCCATGA
92723606 TGCATGAACTTTGCCATGA
1 TGCATGAACTTTGCCATGA
92723625 TG
1 TG
92723627 TTTTGATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (19 bp):
TGCATGAACTTTGCCATGA
Found at i:92723751 original size:16 final size:16
Alignment explanation
Indices: 92723726--92723760 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
92723716 ATTGAACTGC
92723726 TATTGTTTGAATGG-T
1 TATTGTTTGAATGGAT
92723741 TATTAGTTTGAATGGAT
1 TATT-GTTTGAATGGAT
92723758 TAT
1 TAT
92723761 ATGCCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 10 0.56
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (16 bp):
TATTGTTTGAATGGAT
Found at i:92727436 original size:34 final size:34
Alignment explanation
Indices: 92727393--92727460 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
92727383 TCGATCAAAT
*
92727393 GCAATTTGGGCCTAAGCCTATTTCAGTTTCAGTA
1 GCAATTTGGGCCTAAGCCCATTTCAGTTTCAGTA
* *
92727427 GCAATTTGGGCCTTAGCCCATTTCAGTTTTAGTA
1 GCAATTTGGGCCTAAGCCCATTTCAGTTTCAGTA
92727461 TCAGATATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (34 bp):
GCAATTTGGGCCTAAGCCCATTTCAGTTTCAGTA
Found at i:92728077 original size:31 final size:31
Alignment explanation
Indices: 92728042--92728119 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
92728032 GACCCAGAAT
* * *
92728042 CCCACACGCCCGTGTGGACTACCCTTGTGGA
1 CCCACACGCCCGTGTGGACTACCCATATGAA
* *
92728073 CCCACACACCCGTGTAGACTACCCATATGAA
1 CCCACACGCCCGTGTGGACTACCCATATGAA
*
92728104 CCCACACGCCTGTGTG
1 CCCACACGCCCGTGTG
92728120 CCCCATTATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.22, C:0.40, G:0.21, T:0.18
Consensus pattern (31 bp):
CCCACACGCCCGTGTGGACTACCCATATGAA
Found at i:92735450 original size:106 final size:106
Alignment explanation
Indices: 92735265--92735476 Score: 415
Period size: 106 Copynumber: 2.0 Consensus size: 106
92735255 TGAAGACTAA
92735265 GTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACAGTAAATAAATGCAATATTTCAAT
1 GTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACAGTAAATAAATGCAATATTTCAAT
92735330 AATTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTT
66 AATTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTT
*
92735371 GTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACGGTAAATAAATGCAATATTTCAAT
1 GTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACAGTAAATAAATGCAATATTTCAAT
92735436 AATTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTT
66 AATTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTT
92735477 ATTTTATGAA
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.40
Consensus pattern (106 bp):
GTTGGTGAATTTGGCTATAATTGGTACCGAGGTAAGTTTACAGTAAATAAATGCAATATTTCAAT
AATTATTATTAATGCTGTTAATTTCCAGCAATTATGAATTT
Found at i:92735485 original size:13 final size:13
Alignment explanation
Indices: 92735467--92735498 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
92735457 TTTCCAGCAA
92735467 TTATGAATTTATT
1 TTATGAATTTATT
92735480 TTATGAATTTATT
1 TTATGAATTTATT
*
92735493 TGATGA
1 TTATGA
92735499 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:92738726 original size:32 final size:32
Alignment explanation
Indices: 92738685--92738745 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
92738675 AGTGACCATA
*
92738685 AGATGAAGCATAGTAAAAATGGATCCTTTATG
1 AGATGAAGCATAGTAAAAAAGGATCCTTTATG
92738717 AGATGAAGCATAGTAAAAAAGGATCCTTT
1 AGATGAAGCATAGTAAAAAAGGATCCTTT
92738746 CTTTAGAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (32 bp):
AGATGAAGCATAGTAAAAAAGGATCCTTTATG
Found at i:92742104 original size:27 final size:27
Alignment explanation
Indices: 92742074--92742126 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
92742064 ATGTCAGGTA
92742074 CAAAGAGCACATCTGAAATAACTTTGG
1 CAAAGAGCACATCTGAAATAACTTTGG
*
92742101 CAAAGAGCGCATCTGAAATAACTTTG
1 CAAAGAGCACATCTGAAATAACTTTG
92742127 TTACCTGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
CAAAGAGCACATCTGAAATAACTTTGG
Found at i:92744294 original size:13 final size:13
Alignment explanation
Indices: 92744276--92744307 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
92744266 TTTCCAGCAA
92744276 TTATGAATTTATT
1 TTATGAATTTATT
92744289 TTATGAATTTATT
1 TTATGAATTTATT
*
92744302 TGATGA
1 TTATGA
92744308 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:92744534 original size:50 final size:50
Alignment explanation
Indices: 92744402--92744743 Score: 443
Period size: 50 Copynumber: 6.7 Consensus size: 50
92744392 ATTTGGCTAA
* * * * *
92744402 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATT
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* * *
92744458 AGAGGTCCCTTGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
*
92744508 AGAGGTCCCCTGTAAGACCATATCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
92744558 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
92744608 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
92744658 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** *
92744708 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCCTGTAAGACCATGTCTGGGACATGGC
92744744 TTTGGCATGT
Statistics
Matches: 258, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
49 1 0.00
50 185 0.72
51 29 0.11
53 3 0.01
55 2 0.01
56 38 0.15
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:92744689 original size:150 final size:154
Alignment explanation
Indices: 92744402--92744743 Score: 496
Period size: 150 Copynumber: 2.2 Consensus size: 154
92744392 ATTTGGCTAA
* *
92744402 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATTAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCC-TAAGATCA-GAGAGGTCCC
* *
92744467 TTGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAGGTCCCCTGTAAGACCATATC
64 ATGTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAGGTCCCCTATAAGACCATATC
*
92744532 TGGGACATGGCATGGGCACCGA-GACG
129 TGGGACATGGCATGGGCACC-ATCACG
* * *
92744558 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-GAGA-C-GAGAGGTCCCAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTAAGATCAGAGAGGTCCCAT
* * * *
92744619 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACCATGTCTG
66 GTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAGGTCCCCTATAAGACCATATCTG
92744684 GGACATGGCATGGGCACCATCACG
131 GGACATGGCATGGGCACCATCACG
*
92744708 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
92744744 TTTGGCATGT
Statistics
Matches: 169, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
149 1 0.01
150 93 0.55
151 30 0.18
152 1 0.01
153 3 0.02
155 2 0.01
156 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (154 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTAAGATCAGAGAGGTCCCAT
GTAAGACCATGTCTGGGACATGACATGGGCACCGAGATGAGAGGTCCCCTATAAGACCATATCTG
GGACATGGCATGGGCACCATCACG
Found at i:92749635 original size:27 final size:27
Alignment explanation
Indices: 92749602--92749805 Score: 214
Period size: 27 Copynumber: 7.5 Consensus size: 27
92749592 AAACTGTACA
* *
92749602 GCACTAAGTGTGCGATATGACTATGTT
1 GCACTAAGTGTGCGATATGATTATGTG
* *
92749629 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATATGATTATG-TG
* * *
92749656 GCACTAAGTGTGCGAAATGATCATGCG
1 GCACTAAGTGTGCGATATGATTATGTG
* * *
92749683 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TATGATTATGTG
* *
92749711 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATATGATTATGTG
* *
92749738 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATATGATTATGTG
* *
92749765 GCACTAAGTGTGCGAGT-TGATTATATA
1 GCACTAAGTGTGCGA-TATGATTATGTG
*
92749792 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
92749806 GGCTCAATAT
Statistics
Matches: 155, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
27 132 0.85
28 23 0.15
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATATGATTATGTG
Found at i:92749796 original size:109 final size:109
Alignment explanation
Indices: 92749601--92749805 Score: 259
Period size: 109 Copynumber: 1.9 Consensus size: 109
92749591 TAAACTGTAC
* * *
92749601 AGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATATGACTACGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
* *
92749666 TGCGAAATGATCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAAATGATCATACAGCACTAAGTGTGCGAGTTTGACTATGT
* * ** *
92749710 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAGT
1 AGCACTAAGTGTGCGATATGACTACGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
** * * *
92749774 GTGCGAGTTGATTATATAGCACTGAGTGTGCG
65 GTGCGAAATGATCATACAGCACTAAGTGTGCG
92749806 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
108 1 0.01
109 79 0.99
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATATGACTACGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAAATGATCATACAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:92766364 original size:13 final size:13
Alignment explanation
Indices: 92766346--92766377 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
92766336 TTTCCAGCAA
92766346 TTATGAATTTATT
1 TTATGAATTTATT
92766359 TTATGAATTTATT
1 TTATGAATTTATT
*
92766372 TGATGA
1 TTATGA
92766378 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:92769498 original size:30 final size:30
Alignment explanation
Indices: 92769412--92769597 Score: 173
Period size: 30 Copynumber: 6.3 Consensus size: 30
92769402 TGACTTTAGG
* * * *
92769412 TTGCTTACATAAGCTGACATTATGATAGAA
1 TTGCTCACACAAGCTGACATTATAATAGAT
* * * * *
92769442 ATGCTTACACAAGCTAAAATTGTAATAGAT
1 TTGCTCACACAAGCTGACATTATAATAGAT
*
92769472 TTGCTCACACAAGCTGACTTTATAATAG-T
1 TTGCTCACACAAGCTGACATTATAATAGAT
*
92769501 GTTGCTCACACAAGTTGACA-T-TAATAGAT
1 -TTGCTCACACAAGCTGACATTATAATAGAT
* * *
92769530 TTGCTCACACAAGTTGACTTTATAATA-AGG
1 TTGCTCACACAAGCTGACATTATAATAGA-T
* * *
92769560 TTGCTCACACAAGTTGACATTATGATAGAA
1 TTGCTCACACAAGCTGACATTATAATAGAT
92769590 TTGCTCAC
1 TTGCTCAC
92769598 TTAAGCTAAC
Statistics
Matches: 130, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
28 24 0.18
29 5 0.04
30 100 0.77
31 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (30 bp):
TTGCTCACACAAGCTGACATTATAATAGAT
Found at i:92769536 original size:58 final size:58
Alignment explanation
Indices: 92769464--92769597 Score: 216
Period size: 58 Copynumber: 2.3 Consensus size: 58
92769454 GCTAAAATTG
92769464 TAATAGATTTGCTCACACAAGCTGACTTTATAAT-AGTGTTGCTCACACAAGTTGACAT
1 TAATAGATTTGCTCACACAAGCTGACTTTATAATAAG-GTTGCTCACACAAGTTGACAT
*
92769522 TAATAGATTTGCTCACACAAGTTGACTTTATAATAAGGTTGCTCACACAAGTTGACAT
1 TAATAGATTTGCTCACACAAGCTGACTTTATAATAAGGTTGCTCACACAAGTTGACAT
*
92769580 TATGATAGAATTGCTCAC
1 TA--ATAGATTTGCTCAC
92769598 TTAAGCTAAC
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
58 56 0.79
59 2 0.03
60 13 0.18
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (58 bp):
TAATAGATTTGCTCACACAAGCTGACTTTATAATAAGGTTGCTCACACAAGTTGACAT
Found at i:92773760 original size:17 final size:17
Alignment explanation
Indices: 92773738--92773772 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
92773728 AAATGTCACC
92773738 TACCACATTTTTACACT
1 TACCACATTTTTACACT
92773755 TACCACATTTTTACACT
1 TACCACATTTTTACACT
92773772 T
1 T
92773773 TCATTTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (17 bp):
TACCACATTTTTACACT
Found at i:92784401 original size:44 final size:41
Alignment explanation
Indices: 92784305--92784425 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 41
92784295 TGTAATTAAT
* * *
92784305 ATCGATGCCACTATCCCAGACAGGGTTTTACACGAAATCAA
1 ATCGATGCCAATATCCCAGACATGGTCTTACACGAAATCAA
* *
92784346 ATACGATGCCAATTTCCCAGACATGGTCTTATACGTAAATCTCAA
1 AT-CGATGCCAATATCCCAGACATGGTCTTACACG-AAA--TCAA
** **
92784391 ATCGATGCCAACGTCCCAGATGTGGTCTTACACGA
1 ATCGATGCCAATATCCCAGACATGGTCTTACACGA
92784426 TAACACATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 27 0.41
43 4 0.06
44 27 0.41
45 6 0.09
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (41 bp):
ATCGATGCCAATATCCCAGACATGGTCTTACACGAAATCAA
Found at i:92787759 original size:14 final size:14
Alignment explanation
Indices: 92787742--92787771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92787732 TAGCCAACTA
*
92787742 CAAGACCATTTAAC
1 CAAGACCATTCAAC
92787756 CAAGACCATTCAAC
1 CAAGACCATTCAAC
92787770 CA
1 CA
92787772 TACCACATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.33, G:0.07, T:0.17
Consensus pattern (14 bp):
CAAGACCATTCAAC
Found at i:92788962 original size:17 final size:19
Alignment explanation
Indices: 92788926--92788966 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
92788916 GCCATATAAT
92788926 TATCATGAACCAAATCATA
1 TATCATGAACCAAATCATA
*
92788945 TATCAT-AA-CAAATTATA
1 TATCATGAACCAAATCATA
92788962 T-TCAT
1 TATCAT
92788967 TTAGTATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 2 0.10
19 6 0.29
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.34
Consensus pattern (19 bp):
TATCATGAACCAAATCATA
Found at i:92792407 original size:18 final size:17
Alignment explanation
Indices: 92792384--92792417 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
92792374 GAAGTATGAA
92792384 ATTTTGTGTATTTTGTGT
1 ATTTTGTG-ATTTTGTGT
92792402 ATTTTGTGATTTTGTG
1 ATTTTGTGATTTTGTG
92792418 AAATAGGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.65
Consensus pattern (17 bp):
ATTTTGTGATTTTGTGT
Found at i:92792418 original size:8 final size:9
Alignment explanation
Indices: 92792384--92792417 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
92792374 GAAGTATGAA
92792384 ATTTTGTGT
1 ATTTTGTGT
92792393 ATTTTGTGT
1 ATTTTGTGT
92792402 ATTTTGTG-
1 ATTTTGTGT
92792410 ATTTTGTG
1 ATTTTGTG
92792418 AAATAGGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.65
Consensus pattern (9 bp):
ATTTTGTGT
Found at i:92792806 original size:28 final size:29
Alignment explanation
Indices: 92792741--92792835 Score: 104
Period size: 28 Copynumber: 3.3 Consensus size: 29
92792731 GTGAAAAAGA
* *
92792741 CACTTAGTGTACGAAACTTCCAGAAATGG
1 CACTTAGTGTACGAAACATCCAGAGATGG
* *
92792770 CACTTAGTGTGCGAGACATCCAG-GATGG
1 CACTTAGTGTACGAAACATCCAGAGATGG
* * *
92792798 CACTTAGTGTACGATACATCC-GTGAAGG
1 CACTTAGTGTACGAAACATCCAGAGATGG
*
92792826 CACTAAGTGT
1 CACTTAGTGT
92792836 GCAAAACTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 36 0.63
29 20 0.35
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (29 bp):
CACTTAGTGTACGAAACATCCAGAGATGG
Found at i:92798250 original size:29 final size:28
Alignment explanation
Indices: 92798200--92798300 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
92798190 GTGAAAACGA
* *
92798200 CACTTAGTGTGAGAAACTTCCAGAAATGG
1 CACTTAGTGTGTGAAACATCCAG-AATGG
* * *
92798229 CACTTAGTATGTGAGACATCCAGGATGG
1 CACTTAGTGTGTGAAACATCCAGAATGG
*
92798257 CACTTAGTGTGTGATACATCCATGAA-GG
1 CACTTAGTGTGTGAAACATCCA-GAATGG
* *
92798285 CACTAAGTGTGCGAAA
1 CACTTAGTGTGTGAAA
92798301 ATTCGAGAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 39 0.65
29 21 0.35
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (28 bp):
CACTTAGTGTGTGAAACATCCAGAATGG
Found at i:92801084 original size:20 final size:22
Alignment explanation
Indices: 92801044--92801087 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 22
92801034 ATTTTATAAA
92801044 TTATTTAATAATTAAAAATAATT
1 TTATTTAATAATT-AAAATAATT
92801067 TTATTT-ATAATT-AAATAATT
1 TTATTTAATAATTAAAATAATT
92801087 T
1 T
92801088 AAAAAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTTAATAATTAAAATAATT
Found at i:92801084 original size:30 final size:29
Alignment explanation
Indices: 92801050--92801107 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
92801040 TAAATTATTT
*
92801050 AATAA-TTAAAAATAATTTTATTTATAATTA
1 AATAATTTAAAAA-AACTTTATTTA-AATTA
92801080 AATAATTTAAAAAAACTTTATTTAAATT
1 AATAATTTAAAAAAACTTTATTTAAATT
92801108 TATCACCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 15 0.58
31 7 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AATAATTTAAAAAAACTTTATTTAAATTA
Found at i:92803451 original size:20 final size:21
Alignment explanation
Indices: 92803412--92803451 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92803402 ACCTGACACT
*
92803412 TTTTTTTTCATATTTCTTTTG
1 TTTTTTTTCATATTTATTTTG
92803433 TTTTTTTTCAT-TTTATTTT
1 TTTTTTTTCATATTTATTTT
92803452 CATATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTTTTTCATATTTATTTTG
Found at i:92803478 original size:31 final size:30
Alignment explanation
Indices: 92803411--92803482 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 30
92803401 TACCTGACAC
* *
92803411 TTTTT-TTTTCATATTTCTTTTGTTTTTTT
1 TTTTTATTTTCATATTTCTTTTATTTTTCT
92803440 TCATTTTATTTTCATATTTCTTTTATTTTTACT
1 T--TTTTATTTTCATATTTCTTTTATTTTT-CT
92803473 TTTTTATTTT
1 TTTTTATTTT
92803483 ATTTCTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 1 0.03
31 13 0.35
32 21 0.57
33 2 0.05
ACGTcount: A:0.12, C:0.08, G:0.01, T:0.78
Consensus pattern (30 bp):
TTTTTATTTTCATATTTCTTTTATTTTTCT
Found at i:92803524 original size:18 final size:18
Alignment explanation
Indices: 92803501--92803549 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
92803491 ATAAATTGTC
*
92803501 TTTTATTTTTTTACCTTT
1 TTTTATTTTTTTACCTTA
*
92803519 TTTTATTTTTTT-TCTTA
1 TTTTATTTTTTTACCTTA
92803536 TTTTATTTTGTTTA
1 TTTTATTTT-TTTA
92803550 TTTTTTCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTTACCTTA
Found at i:92803527 original size:17 final size:17
Alignment explanation
Indices: 92803501--92803544 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
92803491 ATAAATTGTC
*
92803501 TTTTATTTTTTTACCTTT
1 TTTTA-TTTTTTACCTTA
**
92803519 TTTTATTTTTTTTCTTA
1 TTTTATTTTTTACCTTA
92803536 TTTTATTTT
1 TTTTATTTT
92803545 GTTTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTATTTTTTACCTTA
Found at i:92803528 original size:9 final size:9
Alignment explanation
Indices: 92803501--92803561 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
92803491 ATAAATTGTC
92803501 TTTTA-TTT
1 TTTTATTTT
*
92803509 TTTTACCTTT
1 TTTTA-TTTT
92803519 TTTTATTTT
1 TTTTATTTT
* *
92803528 TTTT-CTTA
1 TTTTATTTT
92803536 TTTTATTTT
1 TTTTATTTT
*
92803545 GTTTATTTT
1 TTTTATTTT
92803554 TTCTTATT
1 TT-TTATT
92803562 AACTTTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 11 0.26
9 18 0.43
10 13 0.31
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTATTTT
Found at i:92803609 original size:21 final size:22
Alignment explanation
Indices: 92803570--92803616 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
92803560 TTAACTTTAA
92803570 AAAATTTGTAATGTATATTTTT
1 AAAATTTGTAATGTATATTTTT
92803592 AAAATTT-TAAT-TATTATTTTT
1 AAAATTTGTAATGTA-TATTTTT
92803613 AAAA
1 AAAA
92803617 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
AAAATTTGTAATGTATATTTTT
Found at i:92803617 original size:22 final size:23
Alignment explanation
Indices: 92803569--92803618 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
92803559 ATTAACTTTA
92803569 AAAAATTTGTAATGTATATTTTT
1 AAAAATTTGTAATGTATATTTTT
92803592 -AAAATTT-TAAT-TATTATTTTT
1 AAAAATTTGTAATGTA-TATTTTT
92803613 AAAAAT
1 AAAAAT
92803619 ATTTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
AAAAATTTGTAATGTATATTTTT
Found at i:92803719 original size:14 final size:14
Alignment explanation
Indices: 92803702--92803728 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92803692 TTTTTTAAAA
92803702 TTTTAAATATTAAT
1 TTTTAAATATTAAT
92803716 TTTTAAATATTAA
1 TTTTAAATATTAA
92803729 CCATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAATATTAAT
Found at i:92803728 original size:37 final size:35
Alignment explanation
Indices: 92803587--92803728 Score: 144
Period size: 37 Copynumber: 4.0 Consensus size: 35
92803577 GTAATGTATA
* *
92803587 TTTTTAAAATTTTAATTATTATTTTTAAAAAT-AT
1 TTTTTAAAATTTTAAATATTATTTTTAAAATTAAT
* * * *
92803621 TTTTT-TAATTTTAGATATATATTTGTGAAATTAAT
1 TTTTTAAAATTTTAAATAT-TATTTTTAAAATTAAT
* * *
92803656 TTTTTATATATTTTAAAAATGTATTTTTTAAATTAAT
1 TTTTTA-AAATTTTAAATAT-TATTTTTAAAATTAAT
92803693 TTTTTAAAATTTTAAATATTAATTTTTAAATATTAA
1 TTTTTAAAATTTTAAATATT-ATTTTTAAA-ATTAA
92803729 CCATATTTTT
Statistics
Matches: 86, Mismatches: 16, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
33 10 0.12
34 15 0.17
35 8 0.09
36 19 0.22
37 34 0.40
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (35 bp):
TTTTTAAAATTTTAAATATTATTTTTAAAATTAAT
Found at i:92803735 original size:23 final size:23
Alignment explanation
Indices: 92803687--92803728 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
92803677 TATTTTTTAA
*
92803687 ATTAATTTTTTAAAATTTTAAAT
1 ATTAATTTTTTAAAATATTAAAT
92803710 ATTAA-TTTTT-AAATATTAA
1 ATTAATTTTTTAAAATATTAA
92803729 CCATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATTTTTTAAAATATTAAAT
Found at i:92803818 original size:20 final size:20
Alignment explanation
Indices: 92803780--92803826 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
92803770 TTGTAAATAC
92803780 AATTTCTTTAATTTCTTTTTA
1 AATTT-TTTAATTTCTTTTTA
*
92803801 CATTTTTTAACTTT-TTTTTA
1 AATTTTTTAA-TTTCTTTTTA
92803821 AATTTT
1 AATTTT
92803827 GAAAAGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTTTTAATTTCTTTTTA
Found at i:92803996 original size:18 final size:18
Alignment explanation
Indices: 92803973--92804020 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
92803963 CTTTTTTAGG
*
92803973 TTTTATATTATTTCCTTA
1 TTTTATATTATTTACTTA
* *
92803991 TTTTATTTTATTTATTTA
1 TTTTATATTATTTACTTA
*
92804009 ATTTATATTATT
1 TTTTATATTATT
92804021 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATATTATTTACTTA
Found at i:92804103 original size:34 final size:35
Alignment explanation
Indices: 92804063--92804158 Score: 110
Period size: 34 Copynumber: 2.8 Consensus size: 35
92804053 TATTTTACAA
92804063 TTTTTTAAAATTTTAATTAT-TATTTT-AGAATTAT
1 TTTTTTAAAATTTTAATTATATATTTTGA-AATTAT
* *
92804097 TTTTTT--AACTTTAGTTATATATTTGTGAAATTAT
1 TTTTTTAAAATTTTAATTATATATTT-TGAAATTAT
*
92804131 TTTTTTATAAATTTTAAATATATATTTT
1 TTTTTTA-AAATTTTAATTATATATTTT
92804159 TCAAATTAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
32 10 0.20
33 5 0.10
34 19 0.37
35 1 0.02
36 1 0.02
37 15 0.29
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (35 bp):
TTTTTTAAAATTTTAATTATATATTTTGAAATTAT
Found at i:92804165 original size:37 final size:35
Alignment explanation
Indices: 92804062--92804171 Score: 104
Period size: 37 Copynumber: 3.2 Consensus size: 35
92804052 ATATTTTACA
92804062 ATTTTTTA-AAATTTTAATTAT-TA-TTTTAGAATT
1 ATTTTTTATAAATTTTAATTATATATTTTTA-AATT
* * *
92804095 ATTTTTT-T-AACTTTAGTTATATATTTGTGAAATT
1 ATTTTTTATAAATTTTAATTATATATTT-TTAAATT
*
92804129 ATTTTTTTATAAATTTTAAATATATATTTTTCAAATT
1 A-TTTTTTATAAATTTTAATTATATATTTTT-AAATT
*
92804166 AGTTTT
1 ATTTTT
92804172 GAAATTATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
32 10 0.16
33 9 0.15
34 7 0.11
35 8 0.13
36 6 0.10
37 21 0.34
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (35 bp):
ATTTTTTATAAATTTTAATTATATATTTTTAAATT
Found at i:92804410 original size:33 final size:34
Alignment explanation
Indices: 92804368--92804504 Score: 165
Period size: 33 Copynumber: 4.0 Consensus size: 34
92804358 CTATAATATA
*
92804368 TATTTTTTAAAATTTTAAATAT-TATTTTTAGAT
1 TATTTTTTAAAATTTTAAATATATATTTTTAAAT
*
92804401 TATTTTTTAAAATTTTAGATATATATTTTTGAAAT
1 TATTTTTTAAAATTTTAAATATATATTTTT-AAAT
*
92804436 TATTTTTTATAAATTTTAAATGTATATTTTTTAAAT
1 TATTTTTTA-AAATTTTAAATATATA-TTTTTAAAT
*
92804472 TAATTTTTT--TATTTTAAATAT-TATTTTTTAAAT
1 T-ATTTTTTAAAATTTTAAATATATA-TTTTTAAAT
92804505 ATTAACCATA
Statistics
Matches: 93, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
33 33 0.35
34 17 0.18
35 12 0.13
36 19 0.20
37 12 0.13
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (34 bp):
TATTTTTTAAAATTTTAAATATATATTTTTAAAT
Found at i:92804415 original size:21 final size:23
Alignment explanation
Indices: 92804391--92804436 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 23
92804381 TTTAAATATT
92804391 ATTTTTAGAT-TAT-TTTTTAAA
1 ATTTTTAGATATATATTTTTAAA
*
92804412 A-TTTTAGATATATATTTTTGAA
1 ATTTTTAGATATATATTTTTAAA
92804434 ATT
1 ATT
92804437 ATTTTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 8 0.38
21 4 0.19
22 8 0.38
23 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (23 bp):
ATTTTTAGATATATATTTTTAAA
Found at i:92804418 original size:20 final size:22
Alignment explanation
Indices: 92804393--92804436 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
92804383 TAAATATTAT
92804393 TTTTAGAT-TAT-TTTTTAAAA
1 TTTTAGATATATATTTTTAAAA
*
92804413 TTTTAGATATATATTTTTGAAA
1 TTTTAGATATATATTTTTAAAA
92804435 TT
1 TT
92804437 ATTTTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTTAGATATATATTTTTAAAA
Found at i:92804452 original size:22 final size:22
Alignment explanation
Indices: 92804427--92804472 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
92804417 AGATATATAT
92804427 TTTTGAAAT-TAT-TTTTTATAAA
1 TTTT-AAATGTATATTTTT-TAAA
92804449 TTTTAAATGTATATTTTTTAAA
1 TTTTAAATGTATATTTTTTAAA
92804471 TT
1 TT
92804473 AATTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 13 0.59
23 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTTAAATGTATATTTTTTAAA
Found at i:92804482 original size:14 final size:15
Alignment explanation
Indices: 92804449--92804480 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
92804439 TTTTTATAAA
92804449 TTTTAAATGTATATT
1 TTTTAAATGTATATT
92804464 TTTTAAAT-TA-ATT
1 TTTTAAATGTATATT
92804477 TTTT
1 TTTT
92804481 TATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTAAATGTATATT
Found at i:92807881 original size:30 final size:29
Alignment explanation
Indices: 92807847--92807949 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 29
92807837 GATTGCTCTA
* * *
92807847 GGTGAAATGGACTCGAACCGCCTATATCCG
1 GGTGATATGAACTCGAACC-CCTATGTCCG
* *
92807877 GGTGATATGAACTTGAACCACTCATGTCCG
1 GGTGATATGAACTCGAACCCCT-ATGTCCG
* *
92807907 GGTTATATGAACTCAAACCACCTATGTCCG
1 GGTGATATGAACTCGAACC-CCTATGTCCG
*
92807937 GGTTATATGAACT
1 GGTGATATGAACT
92807950 GCTCTGGGAC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
29 2 0.03
30 58 0.94
31 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (29 bp):
GGTGATATGAACTCGAACCCCTATGTCCG
Found at i:92810416 original size:274 final size:274
Alignment explanation
Indices: 92809927--92810474 Score: 1078
Period size: 274 Copynumber: 2.0 Consensus size: 274
92809917 TAACATCACG
92809927 AACCGCTCAAGACCTATTACTCGTAGCATCCCCAAAAAGAATGCAATCGTCAGTAAAAAATAGGT
1 AACCGCTCAAGACCTATTACTCGTAGCATCCCCAAAAAGAATGCAATCGTCAGTAAAAAATAGGT
92809992 GATTAATTGATAACCTTTCCTTACCAATTGGAGCACCTTTCATCAAACCTTTTTGCTCAGCAACC
66 GATTAATTGATAACCTTTCCTTACCAATTGGAGCACCTTTCATCAAACCTTTTTGCTCAGCAACC
92810057 TTAATAAGAGTAGAAAAACCCTCAGCACAGATCAGAAAAAGATAAAGGCTAAGAGGATCTCCCTG
131 TTAATAAGAGTAGAAAAACCCTCAGCACAGATCAGAAAAAGATAAAGGCTAAGAGGATCTCCCTG
92810122 TCATAAACCTCTTGAAAGAGAAAACCATGCATCACTAGCACCATTAAGGCTCATAGAGTAAGAGA
196 TCATAAACCTCTTGAAAGAGAAAACCATGCATCACTAGCACCATTAAGGCTCATAGAGTAAGAGA
92810187 CAGAACAAGCGCAT
261 CAGAACAAGCGCAT
* *
92810201 AACCGCTCTAGACCTTTTACTCGTAGCATCCCCAAAAAGAATGCAATCGTCAGTAAAAAATAGGT
1 AACCGCTCAAGACCTATTACTCGTAGCATCCCCAAAAAGAATGCAATCGTCAGTAAAAAATAGGT
92810266 GATTAATTGATAACCTTTCCTTACCAATTGGAGCACCTTTCATCAAACCTTTTTGCTCAGCAACC
66 GATTAATTGATAACCTTTCCTTACCAATTGGAGCACCTTTCATCAAACCTTTTTGCTCAGCAACC
92810331 TTAATAAGAGTAGAAAAACCCTCAGCACAGATCAGAAAAAGATAAAGGCTAAGAGGATCTCCCTG
131 TTAATAAGAGTAGAAAAACCCTCAGCACAGATCAGAAAAAGATAAAGGCTAAGAGGATCTCCCTG
92810396 TCATAAACCTCTTGAAAGAGAAAACCATGCATCACTAGCACCATTAAGGCTCATAGAGTAAGAGA
196 TCATAAACCTCTTGAAAGAGAAAACCATGCATCACTAGCACCATTAAGGCTCATAGAGTAAGAGA
92810461 CAGAACAAGCGCAT
261 CAGAACAAGCGCAT
92810475 CTCATAATGA
Statistics
Matches: 272, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
274 272 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (274 bp):
AACCGCTCAAGACCTATTACTCGTAGCATCCCCAAAAAGAATGCAATCGTCAGTAAAAAATAGGT
GATTAATTGATAACCTTTCCTTACCAATTGGAGCACCTTTCATCAAACCTTTTTGCTCAGCAACC
TTAATAAGAGTAGAAAAACCCTCAGCACAGATCAGAAAAAGATAAAGGCTAAGAGGATCTCCCTG
TCATAAACCTCTTGAAAGAGAAAACCATGCATCACTAGCACCATTAAGGCTCATAGAGTAAGAGA
CAGAACAAGCGCAT
Found at i:92814437 original size:19 final size:18
Alignment explanation
Indices: 92814408--92814444 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
92814398 ATTTTAAGTT
92814408 ATTGAATTTTTAAAATTA
1 ATTGAATTTTTAAAATTA
*
92814426 ATTGATATTTTTATAATTA
1 ATTGA-ATTTTTAAAATTA
92814445 GAGTTATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
ATTGAATTTTTAAAATTA
Done.