Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 74 of 161
Found at i:23190920 original size:72 final size:72
Alignment explanation
Indices: 23190803--23190947 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
23190793 TTCCCAAGTC
*
23190803 CTGGCTTGAACTTGGGACCTCCCAAACACTCCGAGAACACATAACCACTAAAGCTGACAAATATT
1 CTGGCTTGAACTTGGGACCTCCCAAACACTCCCAGAACACATAACCACTAAAGCTGACAAATATT
23190868 TATGTCA
66 TATGTCA
23190875 CTGGCTTGAACTTGGGACCTCCCAAACACTCCCAGAACACATAACCACTAAAGCTGACAAATATT
1 CTGGCTTGAACTTGGGACCTCCCAAACACTCCCAGAACACATAACCACTAAAGCTGACAAATATT
*
23190940 TGTGTCA
66 TATGTCA
23190947 C
1 C
23190948 ACATTCACAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (72 bp):
CTGGCTTGAACTTGGGACCTCCCAAACACTCCCAGAACACATAACCACTAAAGCTGACAAATATT
TATGTCA
Found at i:23193112 original size:15 final size:15
Alignment explanation
Indices: 23193088--23193119 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23193078 CATTCATCCA
*
23193088 CCATTGTTCTTCATT
1 CCATTATTCTTCATT
23193103 CCATTATTCTTCATT
1 CCATTATTCTTCATT
23193118 CC
1 CC
23193120 CTTGCCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.31, G:0.03, T:0.50
Consensus pattern (15 bp):
CCATTATTCTTCATT
Found at i:23194554 original size:22 final size:19
Alignment explanation
Indices: 23194529--23194570 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
23194519 TGGTAATCAT
23194529 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
23194551 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
23194570 T
1 T
23194571 CAACTTTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:23196172 original size:3 final size:3
Alignment explanation
Indices: 23196164--23196201 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
23196154 CGAGGATCCC
* *
23196164 GAA GAA GAA GAA AAA GAA GAA GAA GAC GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
23196202 TCCCACAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.66, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:23198176 original size:10 final size:10
Alignment explanation
Indices: 23198161--23198212 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
23198151 ATTTACATGT
23198161 TTAATTTTAA
1 TTAATTTTAA
23198171 TTAATTTTATA
1 TTAATTTTA-A
* *
23198182 TCAAATTTTGA
1 T-TAATTTTAA
*
23198193 TTAATTTTGA
1 TTAATTTTAA
*
23198203 TTATTTTTAA
1 TTAATTTTAA
23198213 CAGATATGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 25 0.71
11 4 0.11
12 6 0.17
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:23201353 original size:17 final size:16
Alignment explanation
Indices: 23201326--23201360 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
23201316 TAGTTAGAGT
23201326 AAACTGAAACTGTAGG
1 AAACTGAAACTGTAGG
*
23201342 AAACTGGAAACTGTTGG
1 AAACT-GAAACTGTAGG
23201359 AA
1 AA
23201361 GACCATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (16 bp):
AAACTGAAACTGTAGG
Found at i:23205068 original size:54 final size:53
Alignment explanation
Indices: 23205010--23205264 Score: 271
Period size: 54 Copynumber: 4.7 Consensus size: 53
23205000 TATAACAGTT
*
23205010 ATTTTACCCTATGGGGGTATTTTAGTCATTTTATCCTATGGACGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTAGTCATTTTA-CCTATGGAGGTATTTCGGTC
* * * *
23205064 ATTTTACCTTATGGGGGTATTTTGGTCAATTTACCCTATGG-GTGTATTTAGGTC
1 ATTTTACCCTATGGGGGTATTTTAGTCATTTTA-CCTATGGAG-GTATTTCGGTC
* * * **
23205118 AATTTACCCTATGAGGGTA-TTTCGATCATTTTACCTTATCCTAGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTAG-TCATTTTACC-TAT-GGAGGTATTTCGGTC
* * * * *
23205173 ATTTTACCCTATTGGGGTATTTCAATCATTTTACCCTATGGAGGTACTTCGATC
1 ATTTTACCCTATGGGGGTATTTTAGTCATTTTA-CCTATGGAGGTATTTCGGTC
* * *
23205227 ATTTTACCCTATGAGGGTATTTTGGTTATTTTACCTAT
1 ATTTTACCCTATGGGGGTATTTTAGTCATTTTACCTAT
23205265 TTTTGGGTCT
Statistics
Matches: 164, Mismatches: 30, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
53 11 0.07
54 111 0.68
55 37 0.23
56 5 0.03
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTATGGGGGTATTTTAGTCATTTTACCTATGGAGGTATTTCGGTC
Found at i:23205194 original size:82 final size:80
Alignment explanation
Indices: 23205010--23205265 Score: 286
Period size: 81 Copynumber: 3.2 Consensus size: 80
23205000 TATAACAGTT
* * * *
23205010 ATTTTACCCTATGGGGGTATTTTAGTCATTTTATCCTATGGACGTATTTCGGTCATTTTACCTTA
1 ATTTTACCCTATTGGGGTA-TTTAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCTTA
* * *
23205075 TGGGGGTATTTTGGTC
65 TCGAGGTATTTCGGTC
* *
23205091 AATTTACCCTA-TGGGTGTATTTAGGTCAATTTACCCTAT-GAGGGTATTTCGATCATTTTACCT
1 ATTTTACCCTATTGGG-GTATTTA-GTCATTTTACCCTATGGA-GGTATTTCGATCATTTTACCT
*
23205154 TATCCTAGGTATTTCGGTC
63 TAT-CGAGGTATTTCGGTC
* * *
23205173 ATTTTACCCTATTGGGGTATTTCAATCATTTTACCCTATGGAGGTACTTCGATCATTTTACCCTA
1 ATTTTACCCTATTGGGGTATTT-AGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCTTA
* *
23205238 T-GAGGGTATTTTGGTT
65 TCGA-GGTATTTCGGTC
23205254 ATTTTA-CCTATT
1 ATTTTACCCTATT
23205266 TTTGGGTCTC
Statistics
Matches: 149, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
80 16 0.11
81 64 0.43
82 62 0.42
83 7 0.05
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (80 bp):
ATTTTACCCTATTGGGGTATTTAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCTTAT
CGAGGTATTTCGGTC
Found at i:23205206 original size:109 final size:109
Alignment explanation
Indices: 23205053--23205262 Score: 287
Period size: 109 Copynumber: 1.9 Consensus size: 109
23205043 TCCTATGGAC
* *** * *
23205053 GTATTTCGGTCATTTTACCTTATGGGGGTATTTTGGTCAATTTACCCTATGG-GTGTATTTAGGT
1 GTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCAATTTACCCTATGGAG-GTACTTAGAT
23205117 CAATTTACCCTATGAGGGTATTTCGATCATTTTACCTTATCCTAG
65 CAATTTACCCTATGAGGGTATTTCGATCATTTTACCTTATCCTAG
* * *
23205162 GTATTTCGGTCATTTTACCCTATTGGGGTATTTCAATCATTTTACCCTATGGAGGTACTTCGATC
1 GTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCAATTTACCCTATGGAGGTACTTAGATC
* * * *
23205227 ATTTTACCCTATGAGGGTATTTTGGTTATTTTACCT
66 AATTTACCCTATGAGGGTATTTCGATCATTTTACCT
23205263 ATTTTTGGGT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
109 86 0.99
110 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (109 bp):
GTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCAATTTACCCTATGGAGGTACTTAGATC
AATTTACCCTATGAGGGTATTTCGATCATTTTACCTTATCCTAG
Found at i:23205257 original size:27 final size:26
Alignment explanation
Indices: 23205010--23205261 Score: 243
Period size: 27 Copynumber: 9.3 Consensus size: 26
23205000 TATAACAGTT
**
23205010 ATTTTACCCTATGGGGGTATTTTAGTC
1 ATTTTACCCTAT-GGGGTATTTCGGTC
* *
23205037 ATTTTATCCTATGGACGTATTTCGGTC
1 ATTTTACCCTATGG-GGTATTTCGGTC
* *
23205064 ATTTTACCTTATGGGGGTATTTTGGTC
1 ATTTTACCCTAT-GGGGTATTTCGGTC
* *
23205091 AATTTACCCTATGGGTGTATTTAGGTC
1 ATTTTACCCTATGGG-GTATTTCGGTC
* *
23205118 AATTTACCCTATGAGGGTATTTCGATC
1 ATTTTACCCTATG-GGGTATTTCGGTC
* **
23205145 ATTTTACCTTATCCTAGGTATTTCGGTC
1 ATTTTACCCTAT--GGGGTATTTCGGTC
**
23205173 ATTTTACCCTATTGGGGTATTTCAATC
1 ATTTTACCCTA-TGGGGTATTTCGGTC
* *
23205200 ATTTTACCCTATGGAGGTACTTCGATC
1 ATTTTACCCTATGG-GGTATTTCGGTC
* *
23205227 ATTTTACCCTATGAGGGTATTTTGGTT
1 ATTTTACCCTATG-GGGTATTTCGGTC
23205254 ATTTTACC
1 ATTTTACC
23205262 TATTTTTGGG
Statistics
Matches: 187, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.04
27 152 0.81
28 26 0.14
29 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTATGGGGTATTTCGGTC
Found at i:23206018 original size:29 final size:28
Alignment explanation
Indices: 23205972--23206029 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
23205962 ACACATGGTA
23205972 ACTTACAGAACCAAAAAAAGAACTCGGC
1 ACTTACAGAACCAAAAAAAGAACTCGGC
*
23206000 NACTTACAGAACCACAAAAAGAACTCGGC
1 -ACTTACAGAACCAAAAAAAGAACTCGGC
23206029 A
1 A
23206030 TTCACTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.48, C:0.26, G:0.14, T:0.10
Consensus pattern (28 bp):
ACTTACAGAACCAAAAAAAGAACTCGGC
Found at i:23211465 original size:30 final size:30
Alignment explanation
Indices: 23211343--23211468 Score: 121
Period size: 30 Copynumber: 4.2 Consensus size: 30
23211333 TTATTACCAC
* *
23211343 CCCTTTTCATAGTTCGATAGCCGAAGCTAT
1 CCCTTTTCATAATTCGATAGCCGAAGCCAT
* * * * *
23211373 CCATTTCCATATTTTGATAGCCGAATCCAT
1 CCCTTTTCATAATTCGATAGCCGAAGCCAT
* * *
23211403 CCCTTTTCATAATTCAATGGTC-ATCA-CCAT
1 CCCTTTTCATAATTCGATAGCCGA--AGCCAT
*
23211433 CCCTTTTCATAATTCGATAGCCGAAGCTAT
1 CCCTTTTCATAATTCGATAGCCGAAGCCAT
23211463 CCCTTT
1 CCCTTT
23211469 CCATTGGTCG
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
29 2 0.03
30 71 0.95
31 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.36
Consensus pattern (30 bp):
CCCTTTTCATAATTCGATAGCCGAAGCCAT
Found at i:23214297 original size:6 final size:6
Alignment explanation
Indices: 23214286--23214313 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23214276 AGGATTGCAA
23214286 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
23214314 TTGGAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTCC
Found at i:23221027 original size:18 final size:18
Alignment explanation
Indices: 23221004--23221046 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23220994 ACTCAATCCA
**
23221004 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
23221022 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
23221040 AACCCAA
1 AACCCAA
23221047 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:23221163 original size:9 final size:9
Alignment explanation
Indices: 23221151--23221201 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
23221141 TTCAATTCGA
23221151 TTAATTCAG
1 TTAATTCAG
*
23221160 TTAATTCGG
1 TTAATTCAG
* * *
23221169 GTAATCCGG
1 TTAATTCAG
*
23221178 TTAATTTAG
1 TTAATTCAG
23221187 TTAATTCAG
1 TTAATTCAG
23221196 TTAATT
1 TTAATT
23221202 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (9 bp):
TTAATTCAG
Found at i:23221167 original size:18 final size:18
Alignment explanation
Indices: 23221144--23221201 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
23221134 GTAGTGATTC
23221144 AATTCGATTAATTCAGTT
1 AATTCGATTAATTCAGTT
** * *
23221162 AATTCGGGTAATCCGGTT
1 AATTCGATTAATTCAGTT
*
23221180 AATT-TAGTTAATTCAGTT
1 AATTCGA-TTAATTCAGTT
23221198 AATT
1 AATT
23221202 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (18 bp):
AATTCGATTAATTCAGTT
Found at i:23226596 original size:26 final size:26
Alignment explanation
Indices: 23226558--23226730 Score: 172
Period size: 26 Copynumber: 6.7 Consensus size: 26
23226548 AAAATTATTA
23226558 AAATTACTGAAATACCCTTAATGGGT
1 AAATTACTGAAATACCCTTAATGGGT
* * *
23226584 AAATTACTAAAATACCCCTAATGAGT
1 AAATTACTGAAATACCCTTAATGGGT
* *
23226610 AAATTA-TCAAAATACCCTTGATGGGT
1 AAATTACT-GAAATACCCTTAATGGGT
* ** *
23226636 AAATTACCGAAATACCCTCGATGCGT
1 AAATTACTGAAATACCCTTAATGGGT
*
23226662 AAATTACCGAAATA-CCTCTAATGGGT
1 AAATTACTGAAATACCCT-TAATGGGT
* ** *
23226688 AAATTATTGAAATACCCTCGATGGAT
1 AAATTACTGAAATACCCTTAATGGGT
23226714 AAATTA-TCGAAATACCC
1 AAATTACT-GAAATACCC
23226731 CCAAAGGGTC
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
25 5 0.04
26 116 0.94
27 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (26 bp):
AAATTACTGAAATACCCTTAATGGGT
Found at i:23226623 original size:52 final size:51
Alignment explanation
Indices: 23226558--23226730 Score: 208
Period size: 52 Copynumber: 3.3 Consensus size: 51
23226548 AAAATTATTA
* *
23226558 AAATTA-CTGAAATACCCTTAATGGGTAAATTACTAAAATACCC-CTAATGAGT
1 AAATTATC-GAAATACCCTTAATGGGTAAATTACTGAAATACCCTC-GATG-GT
* * *
23226610 AAATTATCAAAATACCCTTGATGGGTAAATTACCGAAATACCCTCGATGCGT
1 AAATTATCGAAATACCCTTAATGGGTAAATTACTGAAATACCCTCGATG-GT
* *
23226662 AAATTACCGAAATA-CCTCTAATGGGTAAATTATTGAAATACCCTCGATGGAT
1 AAATTATCGAAATACCCT-TAATGGGTAAATTACTGAAATACCCTCGATGG-T
23226714 AAATTATCGAAATACCC
1 AAATTATCGAAATACCC
23226731 CCAAAGGGTC
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
51 4 0.04
52 96 0.92
53 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (51 bp):
AAATTATCGAAATACCCTTAATGGGTAAATTACTGAAATACCCTCGATGGT
Found at i:23226690 original size:78 final size:78
Alignment explanation
Indices: 23226558--23226730 Score: 229
Period size: 78 Copynumber: 2.2 Consensus size: 78
23226548 AAAATTATTA
* * * *
23226558 AAATTACTGAAATACCCTTAATGGGTAAATTACTAAAATACCCCTAATGAGTAAATTATCAAAAT
1 AAATTACCGAAATACCCTCAATGCGTAAATTACCAAAATACCCCTAATGAGTAAATTATCAAAAT
* *
23226623 ACCCTTGATGGGT
66 ACCCTCGATGGAT
* * * * **
23226636 AAATTACCGAAATACCCTCGATGCGTAAATTACCGAAATACCTCTAATGGGTAAATTATTGAAAT
1 AAATTACCGAAATACCCTCAATGCGTAAATTACCAAAATACCCCTAATGAGTAAATTATCAAAAT
23226701 ACCCTCGATGGAT
66 ACCCTCGATGGAT
*
23226714 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
23226731 CCAAAGGGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (78 bp):
AAATTACCGAAATACCCTCAATGCGTAAATTACCAAAATACCCCTAATGAGTAAATTATCAAAAT
ACCCTCGATGGAT
Found at i:23227191 original size:28 final size:28
Alignment explanation
Indices: 23227137--23227215 Score: 77
Period size: 33 Copynumber: 2.6 Consensus size: 28
23227127 TACTGTAAAC
*
23227137 GGGCTTAGGCCCACACTGTTTCCATATT
1 GGGCTAAGGCCCACACTGTTTCCATATT
* **
23227165 GGGCTAAGGCTCACACTGTATTGATATTGTATT
1 GGGCTAAGGCCCACACTGT-TT-CCA---TATT
23227198 GGGCTAAGGCCCACACTG
1 GGGCTAAGGCCCACACTG
23227216 ATACTGGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 17 0.41
29 2 0.05
30 1 0.02
33 21 0.51
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (28 bp):
GGGCTAAGGCCCACACTGTTTCCATATT
Found at i:23238176 original size:13 final size:13
Alignment explanation
Indices: 23238139--23238176 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
23238129 CATTAATTTG
*
23238139 GAAAA-AAAAAGA
1 GAAAAGAAAAAAA
*
23238151 GAAAAGCAAAAAA
1 GAAAAGAAAAAAA
23238164 GAAAAGAAAAAAA
1 GAAAAGAAAAAAA
23238177 TATGAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAAAAA
Found at i:23249054 original size:31 final size:30
Alignment explanation
Indices: 23249014--23249074 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
23249004 TCAAGTTTCC
*
23249014 ATATACATGTAACATCCATAT-CATGTATTT
1 ATATACATGTAAAAT-CATATCCATGTATTT
*
23249044 ATATATCATGTAAAATCATTTCCATGTATTT
1 ATATA-CATGTAAAATCATATCCATGTATTT
23249075 CATGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (30 bp):
ATATACATGTAAAATCATATCCATGTATTT
Found at i:23249246 original size:25 final size:25
Alignment explanation
Indices: 23249218--23249267 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
23249208 ATCCTGTATA
*
23249218 GGTATGCT-TATACGAGTTGTAAATC
1 GGTATGCTCTAT-CGAGCTGTAAATC
*
23249243 GGTATGCTCTCTCGAGCTGTAAATC
1 GGTATGCTCTATCGAGCTGTAAATC
23249268 AGTAAGCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (25 bp):
GGTATGCTCTATCGAGCTGTAAATC
Found at i:23249731 original size:21 final size:23
Alignment explanation
Indices: 23249690--23249731 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
23249680 CTAGATCTAT
23249690 ACATATAAATTTAACTCAATTCA
1 ACATATAAATTTAACTCAATTCA
23249713 ACATAT-AATTTAA-TCAATT
1 ACATATAAATTTAACTCAATT
23249732 TAATCCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (23 bp):
ACATATAAATTTAACTCAATTCA
Found at i:23271670 original size:22 final size:21
Alignment explanation
Indices: 23271631--23271671 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
23271621 ATCAAATAGT
**
23271631 TCAATTCACATCCCATCATTC
1 TCAATTCACATCAAATCATTC
23271652 TCAATTCAACATCAAATCAT
1 TCAATTC-ACATCAAATCAT
23271672 CATTTCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (21 bp):
TCAATTCACATCAAATCATTC
Found at i:23272343 original size:20 final size:19
Alignment explanation
Indices: 23272305--23272343 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
23272295 AGTTTTAAAA
**
23272305 TATTTTTAAAATACTTTTT
1 TATTTTTAAAATAAATTTT
*
23272324 TATTTTTAAAATAAAATTT
1 TATTTTTAAAATAAATTTT
23272343 T
1 T
23272344 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTAAAATAAATTTT
Found at i:23278021 original size:72 final size:73
Alignment explanation
Indices: 23277877--23278024 Score: 244
Period size: 72 Copynumber: 2.0 Consensus size: 73
23277867 ATGACACTCA
* * *
23277877 AGAATTTTGAAAATAATTATTCCCTAGGTTATTCAGAACTTACAAGGAAAAAACTACTTGGTCAA
1 AGAATTTCGAAAATAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
23277942 TATTATTG
66 TATTATTG
* *
23277950 AGAATTTCGAAAATAATTATTCCCTAGGTTGTT-AGAACCTATAAGGAAAAAACTACTTGGTAAA
1 AGAATTTCGAAAATAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
23278014 TATTATTG
66 TATTATTG
23278022 AGA
1 AGA
23278025 TGGCATTGAA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 39 0.56
73 31 0.44
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (73 bp):
AGAATTTCGAAAATAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
TATTATTG
Found at i:23280024 original size:21 final size:22
Alignment explanation
Indices: 23279986--23280029 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
23279976 CGAAGCTCAA
23279986 TCAAAAAGAGGTATTTTGACAT
1 TCAAAAAGAGGTATTTTGACAT
23280008 TCAAAAAGAGGTA-TTTGACAT
1 TCAAAAAGAGGTATTTTGACAT
23280029 T
1 T
23280030 GAAGTACCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
TCAAAAAGAGGTATTTTGACAT
Found at i:23293457 original size:130 final size:130
Alignment explanation
Indices: 23293219--23293488 Score: 436
Period size: 130 Copynumber: 2.1 Consensus size: 130
23293209 TTGATTAATT
* * * *
23293219 AAATTCCATTAATGCAATTAAAACCATTGTAGGTGATTCATTGACTTTTTTTTGTTGTTTGTTCA
1 AAATTCCATTAATGCAATTAAAACCATTGCAGGTGATTCATTGACTTTCTTTTATTGATTGTTCA
*
23293284 CTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTGAGATGTT-TTATCAATA
66 CTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTCAGAT-TTGTTATCAATA
23293348 A
130 A
23293349 AAATTCCATTAATGCAATTTAAAACCATTGCAGGTGATTCATTGAC-TTCTTTTATTGATTGTTC
1 AAATTCCATTAATGCAA-TTAAAACCATTGCAGGTGATTCATTGACTTTCTTTTATTGATTGTTC
* *
23293413 ACTTTTCTTTTATCAATACTAAAGCTAGAAATGGTGGTTTTTTTATTTCAGATTTGTTATCAATA
65 ACTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTCAGATTTGTTATCAATA
23293478 A
130 A
*
23293479 AAATTTCATT
1 AAATTCCATT
23293489 CCAAACATTT
Statistics
Matches: 130, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
129 2 0.02
130 101 0.78
131 27 0.21
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (130 bp):
AAATTCCATTAATGCAATTAAAACCATTGCAGGTGATTCATTGACTTTCTTTTATTGATTGTTCA
CTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTCAGATTTGTTATCAATAA
Found at i:23301232 original size:29 final size:29
Alignment explanation
Indices: 23301158--23301261 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
23301148 CACCATTGGT
*
23301158 ACATAGTACTTGATAAATATAACACCGGC
1 ACATAGTACTTGATAACTATAACACCGGC
* * * * * *
23301187 ATAGT-GTGCCTGGTAACTGTAACACCGGT
1 ACA-TAGTACTTGATAACTATAACACCGGC
* *
23301216 ACAAAGTACTTGATAACTATAATCACCGAC
1 ACATAGTACTTGATAACTATAA-CACCGGC
*
23301246 ACATAGTGCTTGATAA
1 ACATAGTACTTGATAA
23301262 ACCCTAATGA
Statistics
Matches: 55, Mismatches: 17, Indels: 5
0.71 0.22 0.06
Matches are distributed among these distances:
29 35 0.64
30 20 0.36
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (29 bp):
ACATAGTACTTGATAACTATAACACCGGC
Found at i:23304643 original size:50 final size:50
Alignment explanation
Indices: 23304528--23304720 Score: 269
Period size: 50 Copynumber: 3.8 Consensus size: 50
23304518 GATAATAACA
* * * ** *
23304528 TGCCAAAGCCATGTCCCAGACATGGTTTTACACGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
23304579 TGCCCATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
23304629 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
23304679 TGCCAACGCCATGTCGCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23304721 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 94 0.75
51 32 0.25
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:23313798 original size:22 final size:22
Alignment explanation
Indices: 23313773--23313816 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
23313763 GTTTTGCAAT
*
23313773 TACAATTGTATAAAATTTTATA
1 TACAATTATATAAAATTTTATA
23313795 TACAATTATATAAAATTTTATA
1 TACAATTATATAAAATTTTATA
23313817 CAACACCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
TACAATTATATAAAATTTTATA
Found at i:23316187 original size:43 final size:43
Alignment explanation
Indices: 23316119--23316275 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 43
23316109 AAAACTCGTA
* *
23316119 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCATATAT
1 CAATGCC-ACTGTCCCAGACAG-GGTCTTACAAGTAATCAAATAT
*
23316162 CAATGCCACTGTCCTAGACAGGGTCTTACAAG-AATCAAATA-
1 CAATGCCACTGTCCCAGACAGGGTCTTACAAGTAATCAAATAT
* * * * *
23316203 CGATGTCGA-TGTCCCAGACATGGTCTTACACGTAAACACAA-AT
1 CAATG-CCACTGTCCCAGACAGGGTCTTACAAGTAATCA-AATAT
** *
23316246 CAATGCCAAAGTCCCAAAC-GTGGTCTTACA
1 CAATGCCACTGTCCCAGACAG-GGTCTTACA
23316276 CGAAAACACA
Statistics
Matches: 92, Mismatches: 14, Indels: 16
0.75 0.11 0.13
Matches are distributed among these distances:
41 24 0.26
42 19 0.21
43 48 0.52
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCACTGTCCCAGACAGGGTCTTACAAGTAATCAAATAT
Found at i:23323096 original size:29 final size:29
Alignment explanation
Indices: 23323054--23323158 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
23323044 CCATCACTGA
23323054 TACATAGTACCTGATAACTGTAACATCGG
1 TACATAGTACCTGATAACTGTAACATCGG
** * *
23323083 TACATAGTGTCTGATAGCTATAAC-TCCGG
1 TACATAGTACCTGATAACTGTAACAT-CGG
* * *
23323112 TAAAAAGTACCTGATAACTGTAATCACCGG
1 TACATAGTACCTGATAACTGTAA-CATCGG
* * *
23323142 CACATAGTTCTTGATAA
1 TACATAGTACCTGATAA
23323159 ATCCTAATGA
Statistics
Matches: 57, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
28 1 0.02
29 40 0.70
30 16 0.28
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (29 bp):
TACATAGTACCTGATAACTGTAACATCGG
Found at i:23327585 original size:3 final size:3
Alignment explanation
Indices: 23327577--23327606 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
23327567 GCAAAAATAC
23327577 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23327607 CAAATTACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:23333971 original size:13 final size:13
Alignment explanation
Indices: 23333953--23333982 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23333943 AACTAATGAT
23333953 ATATTAAAATAAA
1 ATATTAAAATAAA
*
23333966 ATATTAAATTAAA
1 ATATTAAAATAAA
23333979 ATAT
1 ATAT
23333983 AAAGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATTAAAATAAA
Found at i:23333992 original size:19 final size:18
Alignment explanation
Indices: 23333955--23333993 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
23333945 CTAATGATAT
*
23333955 ATTAAAATAAAATATTAA
1 ATTAAAATAAAAGATTAA
23333973 ATTAAAATATAAAGATTAA
1 ATTAAAATA-AAAGATTAA
23333992 AT
1 AT
23333994 CTCAAATTTA
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:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
ATTAAAATAAAAGATTAA
Found at i:23338397 original size:111 final size:111
Alignment explanation
Indices: 23338210--23338415 Score: 313
Period size: 111 Copynumber: 1.9 Consensus size: 111
23338200 AATTCTGCAT
* * * *
23338210 TGGGTAAATCCATCTAGACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTGTCTAT
1 TGGGTAAATCCACCAAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTATCTAT
23338275 TTGAACAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
66 TTGAACAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
* * * *
23338321 TGGGTAAATCCACCAAAACTTACCGTAACACATATGTTCGCAGAGAGTGAAGATGAACTATCTAT
1 TGGGTAAATCCACCAAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTATCTAT
***
23338386 TTGAGTGAAGTGTATTGTATGCGTGTTGCT
66 TTGAACAAAGTGTATTGTATGCGTGTTGCT
23338416 AATATTCATA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 84 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (111 bp):
TGGGTAAATCCACCAAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTATCTAT
TTGAACAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
Found at i:23339141 original size:15 final size:15
Alignment explanation
Indices: 23339121--23339150 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23339111 TGTATTTTAG
*
23339121 CATATGTATTAAAAT
1 CATATGTAATAAAAT
23339136 CATATGTAATAAAAT
1 CATATGTAATAAAAT
23339151 ATCATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
CATATGTAATAAAAT
Found at i:23340213 original size:28 final size:26
Alignment explanation
Indices: 23340182--23340235 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 26
23340172 ATATTACTTA
23340182 TAAAATATTATTATTTTAAGTAAAATAT
1 TAAAATATTATTATTTTAA--AAAATAT
*
23340210 TAAATTATTATTATTTTAAAAAATAT
1 TAAAATATTATTATTTTAAAAAATAT
23340236 AATTCAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.28
28 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TAAAATATTATTATTTTAAAAAATAT
Found at i:23340882 original size:21 final size:22
Alignment explanation
Indices: 23340842--23340882 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23340832 TATTGCACCT
*
23340842 TAAAAAATTTATTATTAATTAA
1 TAAAAAATTTATTATAAATTAA
*
23340864 TAAAAATTTTA-TATAAATT
1 TAAAAAATTTATTATAAATT
23340883 GAAATTCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAAAATTTATTATAAATTAA
Found at i:23347049 original size:21 final size:21
Alignment explanation
Indices: 23347025--23347070 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
23347015 GTGTGGAATG
*
23347025 GCCACACGGACGTGTGGGAGA
1 GCCACACGAACGTGTGGGAGA
* *
23347046 GCCACACGAATGTGTGGTAGA
1 GCCACACGAACGTGTGGGAGA
23347067 GCCA
1 GCCA
23347071 TACAGCCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.37, T:0.13
Consensus pattern (21 bp):
GCCACACGAACGTGTGGGAGA
Found at i:23352485 original size:27 final size:27
Alignment explanation
Indices: 23352455--23352509 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
23352445 ATTTACAAGA
* *
23352455 TTAGCATAAATGTTAATTAAATTTTAG
1 TTAGCATAAAGGTTAATTAAAATTTAG
*
23352482 TTAGTATAAAGGTTAATTAAAATTTAG
1 TTAGCATAAAGGTTAATTAAAATTTAG
23352509 T
1 T
23352510 CCCTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.44
Consensus pattern (27 bp):
TTAGCATAAAGGTTAATTAAAATTTAG
Found at i:23354228 original size:54 final size:54
Alignment explanation
Indices: 23354162--23354554 Score: 375
Period size: 54 Copynumber: 7.3 Consensus size: 54
23354152 TATGGTCTGT
* * * * *
23354162 TGATTTATGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCAT
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
* * * * *
23354216 TGATTTACGATCACAACCTTTTACTTA-TAGGATTTTACGAATCTCACAGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCAC
* * * * * * *
23354270 TGATTTACAATCATGACATTTTACATACGAGATTTAACGAATCTCGCAGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
* * * * * *
23354324 TAATTTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTTGCGGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
* * *
23354378 TGATTTACGA-AATGACCTTTTACTTACGAGATTTTACGAATCTCACGGT-CAGC
1 TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCA-C
** * **
23354431 TGATTTAAAATCACGACCTTTTACTTAC-AGGATTTTATGAATCTCTTGGT-CAGC
1 TGATTTACGATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCA-C
* * * *
23354485 TGATTTACAATCACGACCTTCTACTTAC-ATGATTTTATGAATCTCGCGGTCCAT
1 TGATTTACGATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCAC
*
23354539 TGATTTATGATCACGA
1 TGATTTACGATCACGA
23354555 TCTTCTGCAT
Statistics
Matches: 281, Mismatches: 52, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
52 1 0.00
53 43 0.15
54 234 0.83
55 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (54 bp):
TGATTTACGATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCAC
Found at i:23354475 original size:161 final size:162
Alignment explanation
Indices: 23354164--23354545 Score: 457
Period size: 161 Copynumber: 2.4 Consensus size: 162
23354154 TGGTCTGTTG
* * * * *
23354164 ATTTATGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCATTGATTTACGATCA
1 ATTTATGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCCATTGATTTACGATAA
* * * *
23354229 CAACCTTTTACTTATAGGATTTTACGAATCTCACAGTCCGCTGATTTACAATCATGACATTTTAC
66 CAACCTTTTACTTAGAGGATTTTACGAATCTCACAGTCAGCTGATTTAAAATCACGACATTTTAC
*
23354294 ATACGAGATTTAACGAATCTCGCAGTCCGCTA
131 ATACGAGATTTAACGAATCTCGCAGTCAGCTA
* * **
23354326 ATTTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTTGCGGTCCGCTGATTTACGA-AA
1 ATTTATGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCCATTGATTTACGATAA
** * *
23354390 TGACCTTTTACTTACGA-GATTTTACGAATCTCACGGTCAGCTGATTTAAAATCACGACCTTTTA
66 CAACCTTTTACTTA-GAGGATTTTACGAATCTCACAGTCAGCTGATTTAAAATCACGACATTTTA
* * * *** *
23354454 CTTAC-AGGATTTTATGAATCTCTTGGTCAGCTG
130 CATACGA-GATTTAACGAATCTCGCAGTCAGCTA
** *
23354487 ATTTACAATCACGACCTTCTACTTAC-ATGATTTTATGAATCTCGCGGTCCATTGATTTA
1 ATTTATGATCACGACCTTTTACTTACGA-GATTTTATGAATCTCGCGGTCCATTGATTTA
23354546 TGATCACGAT
Statistics
Matches: 185, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
160 2 0.01
161 128 0.69
162 55 0.30
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (162 bp):
ATTTATGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCCATTGATTTACGATAA
CAACCTTTTACTTAGAGGATTTTACGAATCTCACAGTCAGCTGATTTAAAATCACGACATTTTAC
ATACGAGATTTAACGAATCTCGCAGTCAGCTA
Found at i:23354554 original size:108 final size:108
Alignment explanation
Indices: 23354162--23354552 Score: 443
Period size: 108 Copynumber: 3.6 Consensus size: 108
23354152 TATGGTCTGT
** * * * * *
23354162 TGATTTATGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCATTGATTTACGAT
1 TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
* * * *
23354227 CACAACCTTTTACTTATAGGATTTTACGAATCTCACAGTCCGC
66 CACAACCTTTTACTTACAGGATTTTATGAATCTCTCGGTCCGC
* * * * * * *
23354270 TGATTTACAATCATGACATTTTACATACGAGATTTAACGAATCTCGCAGTCCGCTAATTTATGAT
1 TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
23354335 CACAACCTTTTACTTAC-GAGATTTTATGAATCT-TGCGGTCCGC
66 CACAACCTTTTACTTACAG-GATTTTATGAATCTCT-CGGTCCGC
* * **
23354378 TGATTTACGAA--ATGACCTTTTACTTACGAGATTTTACGAATCTCACGGT-CAGCTGATTTAAA
1 TGATTTAC-AATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCA-CTGATTTATG
* * *
23354440 ATCACGACCTTTTACTTACAGGATTTTATGAATCTCTTGGTCAGC
64 ATCACAACCTTTTACTTACAGGATTTTATGAATCTCTCGGTCCGC
* * *
23354485 TGATTTACAATCACGACCTTCTACTTAC-ATGATTTTATGAATCTCGCGGTCCATTGATTTATGA
1 TGATTTACAATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCACTGATTTATGA
23354549 TCAC
65 TCAC
23354553 GATCTTCTGC
Statistics
Matches: 236, Mismatches: 37, Indels: 20
0.81 0.13 0.07
Matches are distributed among these distances:
106 3 0.01
107 88 0.37
108 141 0.60
109 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (108 bp):
TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
CACAACCTTTTACTTACAGGATTTTATGAATCTCTCGGTCCGC
Found at i:23354574 original size:215 final size:215
Alignment explanation
Indices: 23354176--23354584 Score: 500
Period size: 215 Copynumber: 1.9 Consensus size: 215
23354166 TTATGATCAC
* * * * **
23354176 GACCTTTTACTTATGGGATTTTACGAATCTCGCGGCCCATTGATTTACGATCACAACCTTTTACT
1 GACCTTTTACTTACGAGATTTTACGAATCTCACGGCCCACTGATTTAAAATCACAACCTTTTACT
* * * *
23354241 TATAGGATTTTACGAATCTCACAGTCCGCTGATTTACAATCATGACATTTTACATACGAGATTTA
66 TACAGGATTTTACGAATCTCACAGTCAGCTGATTTACAATCACGACATTCTACATACGAGATTTA
* * * *
23354306 ACGAATCTCGCAGTCCGCTAATTTATGATCACAACCTTTTACTTACGAGATTTT-ATGAATCTTG
131 ACGAATCTCGCAGTCCACTAATTTATGATCACAACCTTCTACATACAAGATTTTCA-GAATCTTG
23354370 CGGTCCGCTGATTTACGAAAT
195 CGGTCCGCTGATTTACGAAAT
* *
23354391 GACCTTTTACTTACGAGATTTTACGAATCTCACGG-TCAGCTGATTTAAAATCACGACCTTTTAC
1 GACCTTTTACTTACGAGATTTTACGAATCTCACGGCCCA-CTGATTTAAAATCACAACCTTTTAC
* *** * *
23354455 TTACAGGATTTTATGAATCTCTTGGTCAGCTGATTTACAATCACGACCTTCTACTTAC-ATGATT
65 TTACAGGATTTTACGAATCTCACAGTCAGCTGATTTACAATCACGACATTCTACATACGA-GATT
* * * * * * * *
23354519 TTATGAATCTCGCGGTCCATTGATTTATGATCACGATCTTCTGCATACAAGATTTTCAGAATCTT
129 TAACGAATCTCGCAGTCCACTAATTTATGATCACAACCTTCTACATACAAGATTTTCAGAATCTT
23354584 G
194 G
23354585 TGTATTACAA
Statistics
Matches: 161, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
214 3 0.02
215 157 0.98
216 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (215 bp):
GACCTTTTACTTACGAGATTTTACGAATCTCACGGCCCACTGATTTAAAATCACAACCTTTTACT
TACAGGATTTTACGAATCTCACAGTCAGCTGATTTACAATCACGACATTCTACATACGAGATTTA
ACGAATCTCGCAGTCCACTAATTTATGATCACAACCTTCTACATACAAGATTTTCAGAATCTTGC
GGTCCGCTGATTTACGAAAT
Found at i:23354617 original size:23 final size:22
Alignment explanation
Indices: 23354590--23354742 Score: 76
Period size: 23 Copynumber: 6.6 Consensus size: 22
23354580 TCTTGTGTAT
23354590 TACAATACAGTTCGTAGAAATTC
1 TACAATACAGTTCG-AGAAATTC
* * *
23354613 TACAATACAATTC-ACAGTATTGC
1 TACAATACAGTTCGAGA-AATT-C
* * *
23354636 TATAAATACAGTTCGTTGTAATTC
1 TA-CAATACAGTTCG-AGAAATTC
* * *
23354660 TACAACACAATTC-ACAATATTTC
1 TACAATACAGTTCGAGAA-A-TTC
* * *
23354683 TATAAATACAGTTCACAGTAATTC
1 TA-CAATACAGTTC-GAGAAATTC
* * *
23354707 TACAATACAGTTTGCGACATTC
1 TACAATACAGTTCGAGAAATTC
23354729 TACAATACAGTTCG
1 TACAATACAGTTCG
23354743 CAACATTTTT
Statistics
Matches: 93, Mismatches: 27, Indels: 21
0.66 0.19 0.15
Matches are distributed among these distances:
21 3 0.03
22 22 0.24
23 37 0.40
24 25 0.27
25 4 0.04
26 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (22 bp):
TACAATACAGTTCGAGAAATTC
Found at i:23354647 original size:47 final size:47
Alignment explanation
Indices: 23354593--23354715 Score: 183
Period size: 47 Copynumber: 2.6 Consensus size: 47
23354583 TGTGTATTAC
* *
23354593 AATACAGTTCGTAGAAATTCTACAATACAATTCACAGTATTGCTATA
1 AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
* * *
23354640 AATACAGTTCGTTGTAATTCTACAACACAATTCACAATATTTCTATA
1 AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
**
23354687 AATACAGTTCACAGTAATTCTACAATACA
1 AATACAGTTCGTAGTAATTCTACAATACA
23354716 GTTTGCGACA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (47 bp):
AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
Found at i:23354729 original size:22 final size:22
Alignment explanation
Indices: 23354703--23354749 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
23354693 GTTCACAGTA
* *
23354703 ATTCTACAATACAGTTTGCGAC
1 ATTCTACAATACAGTTCGCAAC
23354725 ATTCTACAATACAGTTCGCAAC
1 ATTCTACAATACAGTTCGCAAC
23354747 ATT
1 ATT
23354750 TTTGTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (22 bp):
ATTCTACAATACAGTTCGCAAC
Found at i:23354764 original size:24 final size:24
Alignment explanation
Indices: 23354732--23354841 Score: 96
Period size: 24 Copynumber: 4.6 Consensus size: 24
23354722 GACATTCTAC
*
23354732 AATACAGTTCGCAACATTTTTGTA
1 AATACAGTTCGCAACATTTCTGTA
* * * *
23354756 AATATAGTTCACAAAATATTCTAT-
1 AATACAGTTCGCAACAT-TTCTGTA
* * * *
23354780 AATATAGTTCACGACATTTCTATA
1 AATACAGTTCGCAACATTTCTGTA
* * *
23354804 AATACAGTTCGTAGCATTTCTGCA
1 AATACAGTTCGCAACATTTCTGTA
23354828 AATACAGTTCGCAA
1 AATACAGTTCGCAA
23354842 TATTCTACAA
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 6 0.09
24 58 0.85
25 4 0.06
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (24 bp):
AATACAGTTCGCAACATTTCTGTA
Found at i:23354822 original size:72 final size:69
Alignment explanation
Indices: 23354678--23354851 Score: 179
Period size: 72 Copynumber: 2.5 Consensus size: 69
23354668 AATTCACAAT
* ** ** *
23354678 ATTTCTATAAATACAGTTCACAGTAATTCTACAATACAGTTTGCGACATTCTACAATACAGTTCG
1 ATTTCTGTAAATACAGTTCACAAAAATTCTACAATACAGTTCACGACATTCTAAAATACAGTTCG
23354743 CAAC
66 CAAC
* * * *
23354747 ATTTTTGTAAATATAGTTCACAAAATATTCTATAATATAGTTCACGACATTTCTATAAATACAGT
1 ATTTCTGTAAATACAGTTCACAAAA-ATTCTACAATACAGTTCACGACA-TTCTA-AAATACAGT
* *
23354812 TCGTAGC
63 TCGCAAC
* * *
23354819 ATTTCTGCAAATACAGTTCGC-AATATTCTACAA
1 ATTTCTGTAAATACAGTTCACAAAAATTCTACAA
23354852 CATGGTTCGT
Statistics
Matches: 84, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
69 20 0.24
70 27 0.32
71 7 0.08
72 30 0.36
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (69 bp):
ATTTCTGTAAATACAGTTCACAAAAATTCTACAATACAGTTCACGACATTCTAAAATACAGTTCG
CAAC
Found at i:23355249 original size:14 final size:14
Alignment explanation
Indices: 23355230--23355256 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23355220 TAACTTGGAT
23355230 TAAATCTATTAAAA
1 TAAATCTATTAAAA
23355244 TAAATCTATTAAA
1 TAAATCTATTAAA
23355257 TTTATTAGTT
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:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAATCTATTAAAA
Found at i:23356425 original size:18 final size:19
Alignment explanation
Indices: 23356389--23356427 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
23356379 TCTTAAACTG
23356389 ATGTGGTCCAAAGAAATTA
1 ATGTGGTCCAAAGAAATTA
23356408 ATGTGGTCCAAA-AAATTA
1 ATGTGGTCCAAAGAAATTA
23356426 AT
1 AT
23356428 TAGTACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (19 bp):
ATGTGGTCCAAAGAAATTA
Found at i:23359835 original size:21 final size:21
Alignment explanation
Indices: 23359819--23359872 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 21
23359809 AAATATGTTG
*
23359819 AATAATAATACTTATATCTTT
1 AATAATAATACTTATATATTT
23359840 AATAATAATACTTATAATATTT
1 AATAATAATACTTAT-ATATTT
23359862 AATAATAATAC
1 AATAATAATAC
23359873 AATAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAATAATACTTATATATTT
Found at i:23359879 original size:21 final size:20
Alignment explanation
Indices: 23359819--23359879 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
23359809 AAATATGTTG
* *
23359819 AATAATAATACTTATATCTTT
1 AATAATAATACATA-ATATTT
23359840 AATAATAATACTTATAATATTT
1 AATAATAATAC--ATAATATTT
23359862 AATAATAATACAATAATA
1 AATAATAATAC-ATAATA
23359880 AAAATATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 17 0.49
22 16 0.46
23 2 0.06
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAATAATACATAATATTT
Found at i:23360088 original size:3 final size:3
Alignment explanation
Indices: 23360082--23360116 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
23360072 AGCCAACTCT
23360082 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23360117 TGTTATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23360556 original size:93 final size:94
Alignment explanation
Indices: 23360443--23360616 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 94
23360433 CTGTGTTACG
* * *
23360443 TAATTAATGGAAGCAATAAAAA-ACATTGCTAAATCAACCAAAATGCTGAATGTTAGG-TATTTA
1 TAATTAATGGAAGCAATAAAAAGA-ATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTA
*
23360506 TGGGGAATTATATATTAAAGCTTTGATACA
65 TGGGGAATTATAAATTAAAGCTTTGATACA
** * * *
23360536 TAATTAATGTCAGGAATAAAAAGAATTGTTAAAGCAACCAAATTACAGAATGTTAGGATATTTAT
1 TAATTAATGGAAGCAATAAAAAGAATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTAT
23360601 GGGGAATTATAAATTA
66 GGGGAATTATAAATTA
23360617 TTCATACGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
93 47 0.67
94 23 0.33
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (94 bp):
TAATTAATGGAAGCAATAAAAAGAATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTAT
GGGGAATTATAAATTAAAGCTTTGATACA
Found at i:23361388 original size:19 final size:20
Alignment explanation
Indices: 23361344--23361389 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
23361334 AATATAAAAA
*
23361344 CTAAAAAATCATTAAAATTT
1 CTAAAAAATCATTAAAAATT
* *
23361364 CCAAAATATCA-TAAAAATT
1 CTAAAAAATCATTAAAAATT
23361383 CTAAAAA
1 CTAAAAA
23361390 GCCCTAAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (20 bp):
CTAAAAAATCATTAAAAATT
Found at i:23361389 original size:20 final size:19
Alignment explanation
Indices: 23361333--23361389 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
23361323 TATATTTTTT
23361333 AAAT-ATAAAAA--CTAAA
1 AAATCATAAAAATTCTAAA
* *
23361349 AAATCATTAAAATTTCCAAA
1 AAATCA-TAAAAATTCTAAA
*
23361369 ATATCATAAAAATTCTAAA
1 AAATCATAAAAATTCTAAA
23361388 AA
1 AA
23361390 GCCCTAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 5 0.16
19 12 0.39
20 9 0.29
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATCATAAAAATTCTAAA
Found at i:23361509 original size:14 final size:14
Alignment explanation
Indices: 23361474--23361510 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23361464 AAAAGTGTTG
*
23361474 TGAAAAAGTATTTT
1 TGAAAAATTATTTT
*
23361488 AGAAAAATTATTTT
1 TGAAAAATTATTTT
23361502 TGAAAAATT
1 TGAAAAATT
23361511 TGATAGTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (14 bp):
TGAAAAATTATTTT
Found at i:23367034 original size:18 final size:18
Alignment explanation
Indices: 23366981--23367047 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
23366971 TAATAATTAT
23366981 AAATTTAAAATATTTAGAAA
1 AAATTTAAAAT-TTTA-AAA
*** *
23367001 ATTAATTTAGTTTTTTATAA
1 A--AATTTAAAATTTTAAAA
*
23367021 AATTTTAAAATTTTAAAA
1 AAATTTAAAATTTTAAAA
23367039 AAATTTAAA
1 AAATTTAAA
23367048 CACTAAACCC
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
18 20 0.57
20 4 0.11
21 4 0.11
22 7 0.20
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
AAATTTAAAATTTTAAAA
Found at i:23369451 original size:3 final size:3
Alignment explanation
Indices: 23369443--23369499 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
23369433 TAAGCCTTTG
23369443 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23369491 ATA ATA ATA
1 ATA ATA ATA
23369500 TATTGGAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23369986 original size:17 final size:15
Alignment explanation
Indices: 23369964--23370127 Score: 64
Period size: 17 Copynumber: 9.8 Consensus size: 15
23369954 GAATTTTTTC
23369964 TTTTGAAAACACGAGAA
1 TTTTG-AAACACGA-AA
*
23369981 TTTTG-AACTAC-AATT
1 TTTTGAAAC-ACGAA-A
23369996 TTTTTGAAAACACGAAAA
1 TT-TTG-AAACACG-AAA
*
23370014 TTGTTGAGACACGAAA
1 TT-TTGAAACACGAAA
*
23370030 ATTTGAAAACAC-AAA
1 TTTTG-AAACACGAAA
* *
23370045 TTTTTGAAACATGAATTTT
1 -TTTTGAAACACGAA---A
* *
23370064 TTTTAAAACACAAAAA
1 TTTTGAAACAC-GAAA
23370080 TTTTTGAAAACACGAAAAA
1 -TTTTG-AAACACG--AAA
23370099 TTTTGAAACACGAGAA
1 TTTTGAAACACGA-AA
23370115 TTTTTGAAACACG
1 -TTTTGAAACACG
23370128 GGAAATTTTT
Statistics
Matches: 112, Mismatches: 15, Indels: 40
0.67 0.09 0.24
Matches are distributed among these distances:
14 1 0.01
15 18 0.16
16 22 0.20
17 36 0.32
18 28 0.25
19 7 0.06
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (15 bp):
TTTTGAAACACGAAA
Found at i:23370083 original size:18 final size:19
Alignment explanation
Indices: 23369996--23370156 Score: 109
Period size: 17 Copynumber: 9.2 Consensus size: 19
23369986 AACTACAATT
23369996 TTTTTGAAAACACG-AAAA
1 TTTTTGAAAACACGAAAAA
* *
23370014 TTGTTG-AGACACG-AAAA
1 TTTTTGAAAACACGAAAAA
23370031 --TTTGAAAACAC---AAA
1 TTTTTGAAAACACGAAAAA
* **
23370045 TTTTTG-AAACATG-AATT
1 TTTTTGAAAACACGAAAAA
*
23370062 TTTTTTAAAACAC-AAAAA
1 TTTTTGAAAACACGAAAAA
23370080 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACGAAAAA
*
23370099 -TTTTG-AAACACG-AGAA
1 TTTTTGAAAACACGAAAAA
**
23370115 TTTTTG-AAACACGGGAAATT
1 TTTTTGAAAACAC--GAAAAA
*
23370135 TTTTTGAAAACACTAAAAA
1 TTTTTGAAAACACGAAAAA
23370154 TTT
1 TTT
23370157 CGAAACACCG
Statistics
Matches: 111, Mismatches: 19, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
14 3 0.03
15 8 0.07
16 12 0.11
17 34 0.31
18 29 0.26
19 12 0.11
20 7 0.06
21 6 0.05
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (19 bp):
TTTTTGAAAACACGAAAAA
Found at i:23370178 original size:17 final size:17
Alignment explanation
Indices: 23370099--23370178 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 17
23370089 ACACGAAAAA
23370099 TTTTGAAACA-CGAGAAT
1 TTTTGAAACACCG-GAAT
*
23370116 TTTTGAAACACGGGAAATTT
1 TTTTGAAACACCGG-AA--T
*** *
23370136 TTTTGAAAACACTAAAAA
1 TTTTG-AAACACCGGAAT
*
23370154 TTTCGAAACACCGGAAT
1 TTTTGAAACACCGGAAT
23370171 TTTTGAAA
1 TTTTGAAA
23370179 ACATGAAGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
17 26 0.55
18 7 0.15
20 8 0.17
21 6 0.13
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.31
Consensus pattern (17 bp):
TTTTGAAACACCGGAAT
Found at i:23370191 original size:17 final size:17
Alignment explanation
Indices: 23370171--23370226 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
23370161 ACACCGGAAT
23370171 TTTTGAAAACATGAAGA
1 TTTTGAAAACATGAAGA
* * *
23370188 TTTTTAAAATATCAGAA-T
1 TTTTGAAAACAT--GAAGA
*
23370206 TTTTGAAAACATGAGGA
1 TTTTGAAAACATGAAGA
23370223 TTTT
1 TTTT
23370227 TTGAAACACG
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
16 2 0.07
17 14 0.48
18 10 0.34
19 3 0.10
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (17 bp):
TTTTGAAAACATGAAGA
Found at i:23370191 original size:55 final size:55
Alignment explanation
Indices: 23370080--23370192 Score: 158
Period size: 55 Copynumber: 2.1 Consensus size: 55
23370070 AACACAAAAA
* *
23370080 TTTTTGAAAACACGAAAAATTTTGAAACACGAGAATTTTTGAAACACGGGAAATT
1 TTTTTGAAAACACGAAAAATTTCGAAACACGAGAATTTTTGAAACACAGGAAATT
* *
23370135 TTTTTGAAAACACTAAAAATTTCGAAACACCG-GAATTTTTGAAA-ACATGAAGATT
1 TTTTTGAAAACACGAAAAATTTCGAAACA-CGAGAATTTTTGAAACACAGGAA-ATT
23370190 TTT
1 TTT
23370193 AAAATATCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 5 0.10
55 45 0.87
56 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (55 bp):
TTTTTGAAAACACGAAAAATTTCGAAACACGAGAATTTTTGAAACACAGGAAATT
Found at i:23370225 original size:18 final size:18
Alignment explanation
Indices: 23370169--23370232 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
23370159 AAACACCGGA
*
23370169 ATTTTTGAAAACATGAAG
1 ATTTTTGAAAACATGAGG
* * *
23370187 ATTTTT-AAAATATCAGA
1 ATTTTTGAAAACATGAGG
23370204 ATTTTTGAAAACATGAGG
1 ATTTTTGAAAACATGAGG
23370222 ATTTTTTGAAA
1 A-TTTTTGAAA
23370233 CACGAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.35
18 15 0.41
19 9 0.24
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (18 bp):
ATTTTTGAAAACATGAGG
Found at i:23370547 original size:5 final size:5
Alignment explanation
Indices: 23370523--23370564 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
23370513 TACCTTGTTT
* *
23370523 ATTAA AATAA TTTAAA ATTAA ATTAA ATTAA ATTAA ATTAA A
1 ATTAA ATTAA ATT-AA ATTAA ATTAA ATTAA ATTAA ATTAA A
23370565 AATATAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTAA
Found at i:23370775 original size:20 final size:21
Alignment explanation
Indices: 23370750--23370805 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
23370740 GGGCCCTTTT
23370750 TTTTTTCTTTTTT-TCTTCCC
1 TTTTTTCTTTTTTCTCTTCCC
**
23370770 TTTTTTCTTTTCTTCTCTTTTC
1 TTTTTTCTTTT-TTCTCTTCCC
23370792 -TTTTTCTTTTTTCT
1 TTTTTTCTTTTTTCT
23370806 AATAGGCTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.47
21 12 0.38
22 5 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTCTTTTTTCTCTTCCC
Found at i:23370775 original size:24 final size:27
Alignment explanation
Indices: 23370743--23370793 Score: 81
Period size: 24 Copynumber: 2.0 Consensus size: 27
23370733 ACAACTTGGG
23370743 CCCTTTTTT-TTTTCTT-T-TTTTCTT
1 CCCTTTTTTCTTTTCTTCTCTTTTCTT
23370767 CCCTTTTTTCTTTTCTTCTCTTTTCTT
1 CCCTTTTTTCTTTTCTTCTCTTTTCTT
23370794 TTTCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 9 0.38
25 7 0.29
26 1 0.04
27 7 0.29
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (27 bp):
CCCTTTTTTCTTTTCTTCTCTTTTCTT
Found at i:23370782 original size:17 final size:16
Alignment explanation
Indices: 23370759--23370799 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
23370749 TTTTTTTCTT
*
23370759 TTTTTCTTCCCTTTTT
1 TTTTTCTTCCCTTTTC
*
23370775 TCTTTTCTTCTCTTTTC
1 T-TTTTCTTCCCTTTTC
23370792 TTTTTCTT
1 TTTTTCTT
23370800 TTTTCTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTTCCCTTTTC
Found at i:23370893 original size:19 final size:19
Alignment explanation
Indices: 23370859--23370895 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23370849 CTGCTACTGA
*
23370859 TGGCCTGCTGATTTGGGCC
1 TGGCCTGCTGAGTTGGGCC
*
23370878 TGGCCTGCTGCGTTGGGC
1 TGGCCTGCTGAGTTGGGC
23370896 TGCTGCTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.27, G:0.41, T:0.30
Consensus pattern (19 bp):
TGGCCTGCTGAGTTGGGCC
Found at i:23371079 original size:22 final size:22
Alignment explanation
Indices: 23371053--23371094 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23371043 TTTCTTTTTT
23371053 CTTTTCCTTCATTC-TTCTTCCC
1 CTTTT-CTTCATTCTTTCTTCCC
*
23371075 CTTTTCTTCCTTCTTTCTTC
1 CTTTTCTTCATTCTTTCTTC
23371095 TTTCTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (22 bp):
CTTTTCTTCATTCTTTCTTCCC
Found at i:23371646 original size:30 final size:30
Alignment explanation
Indices: 23371602--23371683 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
23371592 GGGCCAAAAA
*
23371602 TAATTTCAAGAAAGTTTAAGGGTTAAAATG
1 TAATTTCAAAAAAGTTTAAGGGTTAAAATG
** *
23371632 TAATTTTGAAAAAGTTTAGGGGTTAAAATG
1 TAATTTCAAAAAAGTTTAAGGGTTAAAATG
23371662 TAATTTCAAAAAAG-TTAAGGGT
1 TAATTTCAAAAAAGTTTAAGGGT
23371684 CGAATTGCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 7 0.16
30 38 0.84
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (30 bp):
TAATTTCAAAAAAGTTTAAGGGTTAAAATG
Found at i:23372243 original size:84 final size:76
Alignment explanation
Indices: 23371903--23372260 Score: 464
Period size: 76 Copynumber: 4.6 Consensus size: 76
23371893 CTTCTTAGAT
** * * * *
23371903 TATGAGTTGACCTTTAAAAAATAGAAATTGAAAAATACATCGGTATGTGACCCGAGGCTCAACTC
1 TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
23371968 ACCTCTCGCAA
66 ACCTCTCGCAA
*
23371979 TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACTCGAGGCTCAACTC
1 TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
*
23372044 ACCTCTAGCAA
66 ACCTCTCGCAA
* * *
23372055 TATGAGTTGATTTTTGAAAAGCAAAAATTGAAAAATACGTTGGTATGTGACCCGAGGCTCAACTC
1 TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
*
23372120 ACCTGTCGCAA
66 ACCTCTCGCAA
* * * *
23372131 TATGAGTTGATTTTTTGAAGAGCAAAAAAAAAATTAAAAGAAACACCTCGGCATGTGACCCGAGG
1 TATGAGTTGA-TTTTT---GA--AAAACAAAAATT-GAA-AAATACCTCGGTATGTGACCCGAGG
23372196 CTCAACTCACCTCTCGCAA
58 CTCAACTCACCTCTCGCAA
*
23372215 TATGAGTTGATTTTTTTGAAAAACAAAAATTAAAAAAATACCTCGG
1 TATGAGTTGA--TTTTTGAAAAACAAAAATT-GAAAAATACCTCGG
23372261 CGTGTGATGT
Statistics
Matches: 249, Mismatches: 24, Indels: 15
0.86 0.08 0.05
Matches are distributed among these distances:
76 148 0.59
77 5 0.02
79 10 0.04
80 17 0.07
82 12 0.05
83 2 0.01
84 49 0.20
85 6 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (76 bp):
TATGAGTTGATTTTTGAAAAACAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
ACCTCTCGCAA
Found at i:23373724 original size:79 final size:81
Alignment explanation
Indices: 23373621--23373804 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
23373611 GCTCCTCGTT
* *
23373621 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
23373683 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
23373701 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
23373765 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
23373781 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23373805 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:23373738 original size:39 final size:41
Alignment explanation
Indices: 23373621--23373804 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
23373611 GCTCCTCGTT
* *
23373621 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
23373661 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
23373701 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
23373740 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
23373781 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23373805 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:23375660 original size:79 final size:79
Alignment explanation
Indices: 23375413--23375935 Score: 522
Period size: 79 Copynumber: 6.8 Consensus size: 79
23375403 CACATGTGAC
*
23375413 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTATTGAAAAAACAGAAATTTAAAAGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAACAGAAA-TTAAAAGAA
**
23375476 ATACCTTAGCATGTGT
64 ATACCTCGGCATGTGT
* *
23375492 CCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGAAAAACA-AATTTAAAAGAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
*
23375554 ACCTCGGCATATGT
66 ACCTCGGCATGTGT
* * ** *
23375568 TCGAGGCTCAACTCACCTCTCGTAATATGAGTCAATTTTTTTGAAAAATAGAAATTAAAAGAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
23375633 ACCTCGGCATGTGT
66 ACCTCGGCATGTGT
* * *
23375647 TCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAAACAGAAATTAAAAAAAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
** * * * *
23375711 ATTTTGGCGTGCGAC
66 ACCTCGGCATGTG-T
* *
23375726 CCGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTTTTTTGAAAAATATAAATT--AA-AAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
* **
23375786 ACCTCAGC--GTAAC
66 ACCTCGGCATGT-GT
* * ** *
23375799 CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTTGAAAAATGGAAATT--GA-AAAT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
* * * *
23375861 ACCTCAGCGTGCGGC
66 ACCTCGGCATG-TGT
* * * * *
23375876 CCAAGGCTCAACTCACCTCTTGCATTATGAGTTG-GTTTTTTGAAAAACATAAATTGAAAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAA
23375936 TATAATTCTT
Statistics
Matches: 381, Mismatches: 49, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
73 24 0.06
74 1 0.00
75 48 0.13
76 72 0.19
77 52 0.14
78 59 0.15
79 125 0.33
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (79 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGAAAT
ACCTCGGCATGTGT
Found at i:23375763 original size:155 final size:157
Alignment explanation
Indices: 23375410--23375922 Score: 561
Period size: 155 Copynumber: 3.3 Consensus size: 157
23375400 TGTCACATGT
* *
23375410 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTATTGAAAAAACAGAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTTTG-AAAAATAGAAA-TTAAAA
* *
23375473 GAAATACCTTAGCATGTGTCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGAAAA
63 GAAATACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
* * * **
23375537 ACA-AATTTAAAAGAAATACCTCGGCATAT
128 ACAGAAATTAAAAAAAATACCTCGGCGTGC
** * **
23375566 G-TTCGAGGCTCAACTCACCTCTCGTAATATGAGTCAATTTTTTTGAAAAATAGAAATTAAAAGA
1 GACCCGAGGCTCAACTCACCTCTCG-CATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAGA
* * * *
23375630 AATACCTCGGCATGTGTTCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAC
65 AATACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAC
** *
23375695 AGAAATTAAAAAAAATATTTTGGCGTGC
130 AGAAATTAAAAAAAATACCTCGGCGTGC
*
23375723 GACCCGAGGCTCAACTCACCTCTCGCA-ATGAGTTGATTTTTTTGAAAAATATAAATT--AA-AA
1 GACCCGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAGAA
** *
23375784 ATACCTCAGC--GTAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTTGAAAAA
66 ATACCTCAGCATGT-GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTTGAAAAA
** * *
23375847 TGGAAATT---GAAAATACCTCAGCGTGC
129 CAGAAATTAAAAAAAATACCTCGGCGTGC
* * * *
23375873 GGCCCAAGGCTCAACTCACCTCTTGCATTATGAGTTG-GTTTTTTGAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCA-TATGAGTTGATTTTTTTGAAAAA
23375923 CATAAATTGA
Statistics
Matches: 302, Mismatches: 45, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
150 37 0.12
151 14 0.05
152 41 0.14
153 27 0.09
154 2 0.01
155 85 0.28
156 50 0.17
157 25 0.08
158 21 0.07
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (157 bp):
GACCCGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAGAA
ATACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
GAAATTAAAAAAAATACCTCGGCGTGC
Found at i:23376795 original size:6 final size:6
Alignment explanation
Indices: 23376785--23376847 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
23376775 TTCATCTTGA
* *
23376785 TTTTTA TTTTTC TTTTCT- TTTTTG TTTTTG TTTTTG TTTTTG TTGTTT-
1 TTTTTG TTTTTG TTTT-TG TTTTTG TTTTTG TTTTTG TTTTTG TT-TTTG
*
23376833 TTGTTG TTTTTG TTT
1 TTTTTG TTTTTG TTT
23376848 CCTTTTTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
5 3 0.06
6 43 0.86
7 4 0.08
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:23376842 original size:8 final size:9
Alignment explanation
Indices: 23376803--23376846 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
23376793 TTTCTTTTCT
23376803 TTTTTGTT-
1 TTTTTGTTG
*
23376811 TTTGTTTTTG
1 TTT-TTGTTG
23376821 TTTTTGTTG
1 TTTTTGTTG
23376830 TTTTTGTTG
1 TTTTTGTTG
23376839 TTTTTGTT
1 TTTTTGTT
23376847 TCCTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 3 0.09
9 26 0.81
10 3 0.09
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (9 bp):
TTTTTGTTG
Found at i:23379016 original size:107 final size:107
Alignment explanation
Indices: 23378830--23379051 Score: 408
Period size: 107 Copynumber: 2.1 Consensus size: 107
23378820 AAACACAATA
* *
23378830 AAAGAATTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGATCAG
1 AAAGATTTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGACCAG
23378895 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
66 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
* *
23378937 AAAGATTTGAAATAAGTTAGATAAAGAAAATGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
1 AAAGATTTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGACCAG
23379002 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
66 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
23379044 AAAGATTT
1 AAAGATTT
23379052 CACAACTCCC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 111 1.00
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (107 bp):
AAAGATTTGAAATAAGTTAGATAAAGAAAACGACACAAGCAGAATTTAAAAGAAAGAATGACCAG
CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
Found at i:23389292 original size:11 final size:11
Alignment explanation
Indices: 23389276--23389300 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23389266 GCTCGGGAAG
23389276 ATCAGAGGTGT
1 ATCAGAGGTGT
23389287 ATCAGAGGTGT
1 ATCAGAGGTGT
23389298 ATC
1 ATC
23389301 TCCTTTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (11 bp):
ATCAGAGGTGT
Found at i:23390833 original size:18 final size:17
Alignment explanation
Indices: 23390810--23391062 Score: 155
Period size: 18 Copynumber: 14.4 Consensus size: 17
23390800 AACTACAATT
23390810 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACAC-GAAA
*
23390828 TTTTTG-AGACACGAAA
1 TTTTTGAAAACACGAAA
* *
23390844 -ATTTGAAACCAC-AAA
1 TTTTTGAAAACACGAAA
23390859 TTTTTG-AAACACGAAA
1 TTTTTGAAAACACGAAA
*
23390875 TTGTTTTTTAAAACACGAAAA
1 ---TTTTTGAAAACACG-AAA
*
23390896 TTTTTGAAAATACGAAAA
1 TTTTTGAAAACACG-AAA
23390914 TTTTTG-AAACACGAGAA
1 TTTTTGAAAACACGA-AA
23390931 TTTTTG-AAACACGAGAAA
1 TTTTTGAAAACAC--GAAA
*
23390949 TTTTTTTGAAAACACTAAAA
1 --TTTTTGAAAACAC-GAAA
* * * *
23390969 ATTTCG-AAACACAGGAG
1 TTTTTGAAAACAC-GAAA
23390986 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
* *
23391004 TTTTT-AAAATACCAGAA
1 TTTTTGAAAACACGA-AA
*
23391021 TTTTTGAAAACACGAGGAT
1 TTTTTGAAAACACGA--AA
* *
23391040 TTTTTG-AAACATGAAT
1 TTTTTGAAAACACGAAA
23391056 TTTTTGA
1 TTTTTGA
23391063 TTTAAAAAAA
Statistics
Matches: 187, Mismatches: 28, Indels: 41
0.73 0.11 0.16
Matches are distributed among these distances:
15 12 0.06
16 24 0.13
17 51 0.27
18 60 0.32
19 15 0.08
20 16 0.09
21 9 0.05
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:23390839 original size:17 final size:16
Alignment explanation
Indices: 23390810--23391062 Score: 141
Period size: 17 Copynumber: 14.4 Consensus size: 16
23390800 AACTACAATT
23390810 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACAC-GAAA
*
23390828 TTTTTGAGACACGAAA
1 TTTTTGAAACACGAAA
*
23390844 -ATTTGAAACCAC-AAA
1 TTTTTGAAA-CACGAAA
23390859 TTTTTGAAACACGAAA
1 TTTTTGAAACACGAAA
*
23390875 TTGTTTTTTAAAACACGAAAA
1 ----TTTTTGAAACACG-AAA
*
23390896 TTTTTGAAAATACGAAAA
1 TTTTTG-AAACACG-AAA
23390914 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGA-AA
23390931 TTTTTGAAACACGAGAAA
1 TTTTTGAAACAC--GAAA
*
23390949 TTTTTTTGAAAACACTAAAA
1 --TTTTTG-AAACAC-GAAA
* * * *
23390969 ATTTCGAAACACAGGAG
1 TTTTTGAAACAC-GAAA
23390986 TTTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAA-A
* * *
23391004 TTTTTAAAATACCAGAA
1 TTTTTGAAACACGA-AA
*
23391021 TTTTTGAAAACACGAGGAT
1 TTTTTG-AAACACGA--AA
* *
23391040 TTTTTGAAACATGAAT
1 TTTTTGAAACACGAAA
23391056 TTTTTGA
1 TTTTTGA
23391063 TTTAAAAAAA
Statistics
Matches: 187, Mismatches: 28, Indels: 42
0.73 0.11 0.16
Matches are distributed among these distances:
15 12 0.06
16 27 0.14
17 55 0.29
18 53 0.28
19 10 0.05
20 21 0.11
21 9 0.05
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (16 bp):
TTTTTGAAACACGAAA
Found at i:23390925 original size:35 final size:35
Alignment explanation
Indices: 23390810--23391050 Score: 197
Period size: 35 Copynumber: 6.8 Consensus size: 35
23390800 AACTACAATT
* *
23390810 TTTTTGAAAACACGGAAATTTTTGAGACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* *
23390845 --TTTGAAACCAC--AAATTTTTGAAACACGAAATTG
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAA--A
* *
23390878 TTTTTTAAAACACGAAAATTTTTGAAAATACGAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
*
23390914 TTTTTG-AAACACGAGAATTTTTGAAACACGAGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGA-AAA
* * * * *
23390949 TTTTTTTGAAAACACTAAAAATTTCGAAACAC-AGGAG
1 --TTTTTGAAAACACGAAAATTTTTGAAACACGA-AAA
* * * * *
23390986 TTTTTGAAAACACGAAGATTTTTAAAATACCAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* *
23391021 TTTTTGAAAACACGAGGATTTTTTGAAACA
1 TTTTTGAAAACACGA-AAATTTTTGAAACA
23391051 TGAATTTTTT
Statistics
Matches: 165, Mismatches: 28, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
31 18 0.11
33 10 0.06
34 7 0.04
35 69 0.42
36 15 0.09
37 18 0.11
38 28 0.17
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:23391582 original size:11 final size:11
Alignment explanation
Indices: 23391566--23391625 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
23391556 AACTTGGGCC
23391566 CTTTTTTTTTT
1 CTTTTTTTTTT
*
23391577 CTTTTTTTCTT
1 CTTTTTTTTTT
**
23391588 C--CCTTTTTT
1 CTTTTTTTTTT
* *
23391597 CTTTTTCTTCT
1 CTTTTTTTTTT
*
23391608 CTTTTCTTTTT
1 CTTTTTTTTTT
23391619 CTTTTTT
1 CTTTTTT
23391626 CTACTGGGCT
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
9 6 0.17
11 29 0.83
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:23391715 original size:19 final size:19
Alignment explanation
Indices: 23391681--23391717 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23391671 CTGCTGCTGA
**
23391681 TGGCCTGCTGTTTTGGGCC
1 TGGCCTGCTGCGTTGGGCC
23391700 TGGCCTGCTGCGTTGGGC
1 TGGCCTGCTGCGTTGGGC
23391718 TGCTGCTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.41, T:0.32
Consensus pattern (19 bp):
TGGCCTGCTGCGTTGGGCC
Found at i:23391868 original size:7 final size:7
Alignment explanation
Indices: 23391856--23391917 Score: 63
Period size: 7 Copynumber: 9.0 Consensus size: 7
23391846 TAAAAAATTA
23391856 TTTTCTT
1 TTTTCTT
23391863 TTTTCTT
1 TTTTCTT
23391870 TTTTC-T
1 TTTTCTT
*
23391876 TTTCCTT
1 TTTTCTT
*
23391883 CTTTCTT
1 TTTTCTT
* * *
23391890 CTTCCCT
1 TTTTCTT
23391897 TTTTCTT
1 TTTTCTT
*
23391904 CTTTCTT
1 TTTTCTT
23391911 TTTTCTT
1 TTTTCTT
23391918 CCTTACTTCC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
6 5 0.11
7 39 0.89
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCTT
Found at i:23391875 original size:14 final size:14
Alignment explanation
Indices: 23391856--23391918 Score: 74
Period size: 14 Copynumber: 4.6 Consensus size: 14
23391846 TAAAAAATTA
* *
23391856 TTTTCTTTTTTCTT
1 TTTTCTTCTTCCTT
23391870 TTTTCTT-TTCCTT
1 TTTTCTTCTTCCTT
* *
23391883 CTTTCTTCTTCCCT
1 TTTTCTTCTTCCTT
*
23391897 TTTTCTTCTTTCTT
1 TTTTCTTCTTCCTT
23391911 TTTTCTTC
1 TTTTCTTC
23391919 CTTACTTCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.26
14 31 0.74
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTCTTCTTCCTT
Found at i:23392057 original size:9 final size:9
Alignment explanation
Indices: 23392025--23392057 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
23392015 TCCCTTTCCC
23392025 TCTTTTTCT
1 TCTTTTTCT
*
23392034 CCTTTTTCT
1 TCTTTTTCT
23392043 TCTTTTT-T
1 TCTTTTTCT
23392051 TCTTTTT
1 TCTTTTT
23392058 GCTTGCGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:23393175 original size:72 final size:69
Alignment explanation
Indices: 23393064--23393237 Score: 194
Period size: 72 Copynumber: 2.5 Consensus size: 69
23393054 AAATTTTAAT
* ** * *
23393064 TTTAATTTTAGGAATAAATTTTTAAATAATCTTAAATTTTAAAATTTATAAATAATATATATTTA
1 TTTAATTTTAGAAATAAATTTTTAAATAAT-TTTTATTTT-AAATTTAGAAATAATATATATCTA
**
23393129 AT-ACT
64 ATAAAA
* *
23393134 TTTAAAATTTTAGAAATAAATTTTTAAATAATTGTTTATTTTTATTTTAGAAATAATATATATCT
1 TTT--AATTTTAGAAATAAATTTTTAAATAATT-TTTATTTTAAATTTAGAAATAATATATATCT
23393199 AATAAAA
63 AATAAAA
23393206 TTTAATTTTAGAAAT-AA-TTTTAAA-AATTTTTA
1 TTTAATTTTAGAAATAAATTTTTAAATAATTTTTA
23393238 AAATATTTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
66 4 0.04
67 4 0.04
68 7 0.08
69 2 0.02
70 15 0.16
71 23 0.25
72 36 0.40
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (69 bp):
TTTAATTTTAGAAATAAATTTTTAAATAATTTTTATTTTAAATTTAGAAATAATATATATCTAAT
AAAA
Found at i:23393234 original size:21 final size:20
Alignment explanation
Indices: 23393209--23393265 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
23393199 AATAAAATTT
23393209 AATTTTAGAAATAATTTTAAA
1 AATTTTA-AAATAATTTTAAA
* *
23393230 AATTTTTAAAATATTTTTTAA
1 AA-TTTTAAAATAATTTTAAA
23393251 AA-TTT-AAATAATTTT
1 AATTTTAAAATAATTTT
23393266 TAAAGTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.28
19 3 0.09
21 15 0.47
22 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AATTTTAAAATAATTTTAAA
Found at i:23393258 original size:19 final size:18
Alignment explanation
Indices: 23393217--23393269 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
23393207 TTAATTTTAG
*
23393217 AAATAATTTTAAAAATTTTT
1 AAATAATTTTTAAAA--TTT
*
23393237 AAAATATTTTTTAAAATTT
1 -AAATAATTTTTAAAATTT
23393256 AAATAATTTTTAAA
1 AAATAATTTTTAAA
23393270 GTTTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 13 0.45
19 3 0.10
21 13 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATAATTTTTAAAATTT
Found at i:23393264 original size:30 final size:30
Alignment explanation
Indices: 23393224--23393290 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
23393214 TAGAAATAAT
23393224 TTTAAAAATTTTTAAA-ATATTTTTTAAAA
1 TTTAAAAATTTTTAAAGATATTTTTTAAAA
* * *
23393253 TTTAAATAATTTTTAAAGTTTTTTTTTTAAA
1 TTTAAA-AATTTTTAAAGATATTTTTTAAAA
23393284 TTTAAAA
1 TTTAAAA
23393291 GTAATATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 6 0.18
30 11 0.33
31 16 0.48
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (30 bp):
TTTAAAAATTTTTAAAGATATTTTTTAAAA
Found at i:23393269 original size:11 final size:10
Alignment explanation
Indices: 23393223--23393269 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
23393213 TTAGAAATAA
23393223 TTTTAAAAAT
1 TTTTAAAAAT
23393233 TTTTAAAATAT
1 TTTTAAAA-AT
*
23393244 TTTTTAAAA-
1 TTTTAAAAAT
23393253 -TTTAAATAAT
1 TTTTAAA-AAT
23393263 TTTTAAA
1 TTTTAAA
23393270 GTTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 5 0.16
9 2 0.06
10 9 0.29
11 15 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAAAAAT
Found at i:23393369 original size:17 final size:18
Alignment explanation
Indices: 23393342--23393375 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23393332 TAATAATTTA
23393342 TTTTGAAATAAAATAAAG
1 TTTTGAAATAAAATAAAG
*
23393360 TTTT-AAATAATATAAA
1 TTTTGAAATAAAATAAA
23393376 ATTATAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TTTTGAAATAAAATAAAG
Found at i:23395278 original size:27 final size:27
Alignment explanation
Indices: 23395246--23395299 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
23395236 GAACAATGGA
23395246 CACTCTTTATCAATTTGTTGAACATGT
1 CACTCTTTATCAATTTGTTGAACATGT
*
23395273 CACTCTTTCTCAATTTGTTGAACATGT
1 CACTCTTTATCAATTTGTTGAACATGT
23395300 TTAAATCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.44
Consensus pattern (27 bp):
CACTCTTTATCAATTTGTTGAACATGT
Found at i:23397459 original size:42 final size:42
Alignment explanation
Indices: 23397397--23397544 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
23397387 TTTTATGTTC
* * **
23397397 AGCTCTTTGGAGCTTTTGTTTAATTCATATGAGTTTCCGTTA
1 AGCTCTTTTGAGCTTCTGTTTAACCCATATGAGTTTCCGTTA
* * *
23397439 AGCTCTTTTGAGCTTCTGTTTAACCCCTATGAGTTTCTGTTC
1 AGCTCTTTTGAGCTTCTGTTTAACCCATATGAGTTTCCGTTA
* * * * ** *
23397481 AGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTTTGTTT
1 AGCTCTTTTGAGCTTCTGTTTAACCCATATGAGTTTCCGTTA
**
23397523 AGCTCTCATGAGCTTCTGTTTA
1 AGCTCTTTTGAGCTTCTGTTTA
23397545 GCCTCTAGGC
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (42 bp):
AGCTCTTTTGAGCTTCTGTTTAACCCATATGAGTTTCCGTTA
Found at i:23397545 original size:21 final size:21
Alignment explanation
Indices: 23397447--23397546 Score: 76
Period size: 21 Copynumber: 4.8 Consensus size: 21
23397437 TAAGCTCTTT
* *
23397447 TGAGCTTCTGTTTAAC-CCCTA
1 TGAGCTTCTGTTTAGCTCTC-A
* * *
23397468 TGAGTTTCTGTTCAGCTCTTA
1 TGAGCTTCTGTTTAGCTCTCA
* * * *
23397489 TGAGCTTCTGTTCAACCCTTA
1 TGAGCTTCTGTTTAGCTCTCA
* * *
23397510 TGGGTTTTTGTTTAGCTCTCA
1 TGAGCTTCTGTTTAGCTCTCA
23397531 TGAGCTTCTGTTTAGC
1 TGAGCTTCTGTTTAGC
23397547 CTCTAGGCTT
Statistics
Matches: 60, Mismatches: 18, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
21 59 0.98
22 1 0.02
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (21 bp):
TGAGCTTCTGTTTAGCTCTCA
Found at i:23400574 original size:21 final size:21
Alignment explanation
Indices: 23400548--23400588 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
23400538 ATCTGTTAAA
23400548 TATGTAAATAATATATTTAGT
1 TATGTAAATAATATATTTAGT
*
23400569 TATGTAAATATTATATTTAG
1 TATGTAAATAATATATTTAG
23400589 GAAATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (21 bp):
TATGTAAATAATATATTTAGT
Found at i:23406145 original size:92 final size:92
Alignment explanation
Indices: 23405976--23406145 Score: 218
Period size: 92 Copynumber: 1.8 Consensus size: 92
23405966 GAAATAAATA
* * *
23405976 TTATGAGCAATCTGAAGTGTTATCAGGGGAGAATATTTAGCCTACGGGCCTTACATTATGTGCAC
1 TTATGAGCAATCTGAAGTGTTATCAGGGGAGAAAATTTAGCCTACAGGCCTTACACTATGTGCAC
*
23406041 CTGGTGTCTTATCGGTTGGAATAGCTC
66 CTGGCGTCTTATCGGTTGGAATAGCTC
* * * *
23406068 TTATGAGCAATTTGACA-TGTTATC-GGGAGAGAAAATTTAGCCTATAGGCCTTGCACTATTTGC
1 TTATGAGCAATCTGA-AGTGTTATCAGGG-GAGAAAATTTAGCCTACAGGCCTTACACTATGTGC
* *
23406131 ATCTGGCGTGTTATC
64 ACCTGGCGTCTTATC
23406146 AAATGGTCAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
91 3 0.05
92 62 0.94
93 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (92 bp):
TTATGAGCAATCTGAAGTGTTATCAGGGGAGAAAATTTAGCCTACAGGCCTTACACTATGTGCAC
CTGGCGTCTTATCGGTTGGAATAGCTC
Found at i:23408694 original size:16 final size:16
Alignment explanation
Indices: 23408673--23408710 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
23408663 AAAATAAATG
23408673 AAAGAAG-AAACATAAA
1 AAAGAAGAAAACA-AAA
23408689 AAAGAAAGAAAACAAAA
1 AAAG-AAGAAAACAAAA
23408706 AAAGA
1 AAAGA
23408711 GGAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 10 0.50
18 5 0.25
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAACAAAA
Found at i:23423251 original size:5 final size:5
Alignment explanation
Indices: 23423241--23423284 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
23423231 ATAAGGAAAA
* * *
23423241 ATATG ATATG ACATG ACATG ACATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
23423285 TGTGCTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (5 bp):
ATATG
Found at i:23423952 original size:65 final size:66
Alignment explanation
Indices: 23423870--23424002 Score: 198
Period size: 66 Copynumber: 2.0 Consensus size: 66
23423860 ATGAGAGCTT
* * *
23423870 AGACTAGGCCCCCAAAA-GGGTTACTAAACCGAGAA-GAGGACATCCAAAAATAGAGCAAAACAA
1 AGACAAGGCCCCAAAAAGGGGTTACTAAACCGA-AAGGAGGACATCAAAAAATAGAGCAAAACAA
23423933 GG
65 GG
* *
23423935 AGACAAGGCCCCAAAAAGGGGTTATTAAACCGAAAGGAGGACATCAAAAAATAGAGCAGAACAAG
1 AGACAAGGCCCCAAAAAGGGGTTACTAAACCGAAAGGAGGACATCAAAAAATAGAGCAAAACAAG
23424000 G
66 G
23424001 AG
1 AG
23424003 GACGACAACC
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
65 17 0.28
66 44 0.72
ACGTcount: A:0.47, C:0.19, G:0.25, T:0.09
Consensus pattern (66 bp):
AGACAAGGCCCCAAAAAGGGGTTACTAAACCGAAAGGAGGACATCAAAAAATAGAGCAAAACAAG
G
Found at i:23424545 original size:28 final size:28
Alignment explanation
Indices: 23424514--23424569 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
23424504 ACACAAATAG
23424514 GGAAAAATAGGATATGATATTATGCTAA
1 GGAAAAATAGGATATGATATTATGCTAA
*
23424542 GGAAAGATAGGATATGATATTATGCTAA
1 GGAAAAATAGGATATGATATTATGCTAA
23424570 TAAATTAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.23, T:0.29
Consensus pattern (28 bp):
GGAAAAATAGGATATGATATTATGCTAA
Found at i:23426628 original size:65 final size:65
Alignment explanation
Indices: 23426544--23426666 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 65
23426534 CAAAGCTCAA
*
23426544 ACAAGGCCCCAAAAGGGGTTATTAAACCGAGAGGAGGACATCA-AAAATAGAGCAGAACAAGGAG
1 ACAAGGCCCCAAAAAGGGTTATTAAACCGAGAGGAGGACATCAGAAAATAGAGCAGAACAAGGAG
* *
23426608 ACAAGGCCCCCAAAAAGGGTTATTAAATCGAGAGGATGACATCAGAAAATAGAGCAGAA
1 ACAAGG-CCCCAAAAAGGGTTATTAAACCGAGAGGAGGACATCAGAAAATAGAGCAGAA
23426667 TAAAGAGGAC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 6 0.11
65 34 0.63
66 14 0.26
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (65 bp):
ACAAGGCCCCAAAAAGGGTTATTAAACCGAGAGGAGGACATCAGAAAATAGAGCAGAACAAGGAG
Found at i:23427204 original size:5 final size:5
Alignment explanation
Indices: 23427194--23427232 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
23427184 ATAAGGAAAA
23427194 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
23427233 TATAGTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:23430550 original size:51 final size:51
Alignment explanation
Indices: 23430489--23430599 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
23430479 TTTATTTCTC
*
23430489 ATTTT-CATTTTCATTTAGGAGAAAACCACATTCATTTCCAAATGATTTCAT
1 ATTTTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATG-TTTCAT
* ** *
23430540 -TTTTCCATTTTCATTTTGGAGAAAACCTTAATCGTTTCCAAATGTTTCAT
1 ATTTTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGTTTCAT
23430590 ATTTCTCCAT
1 ATTT-TCCAT
23430600 GTCACCATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
50 10 0.19
51 37 0.71
52 5 0.10
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (51 bp):
ATTTTCCATTTTCATTTAGGAGAAAACCACAATCATTTCCAAATGTTTCAT
Found at i:23431127 original size:24 final size:24
Alignment explanation
Indices: 23431100--23431146 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
23431090 CAAGCCAAGG
23431100 GCGTTTTGGTTTGTACAGTGAAAA
1 GCGTTTTGGTTTGTACAGTGAAAA
23431124 GCGTTTTGGTTTGTACAGTGAAA
1 GCGTTTTGGTTTGTACAGTGAAA
23431147 GTTAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.38
Consensus pattern (24 bp):
GCGTTTTGGTTTGTACAGTGAAAA
Found at i:23435787 original size:13 final size:13
Alignment explanation
Indices: 23435764--23435796 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
23435754 AACAGTAAAT
23435764 TGTTATTTGTTTTA
1 TGTT-TTTGTTTTA
23435778 TGTTTTTGTTTTA
1 TGTTTTTGTTTTA
23435791 TGTTTT
1 TGTTTT
23435797 CTGTATAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (13 bp):
TGTTTTTGTTTTA
Found at i:23446481 original size:21 final size:21
Alignment explanation
Indices: 23446455--23446496 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23446445 AGCACCATAG
*
23446455 GAAATTAAATGTTTTATACAT
1 GAAATTAAATCTTTTATACAT
23446476 GAAATTAAATCTTTTATACAT
1 GAAATTAAATCTTTTATACAT
23446497 TTATAAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (21 bp):
GAAATTAAATCTTTTATACAT
Found at i:23457976 original size:27 final size:27
Alignment explanation
Indices: 23457946--23458123 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
23457936 ATATTGAGCC
* *
23457946 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
23457973 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
23458000 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
23458028 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
23458055 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
23458082 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
23458109 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23458124 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:23458085 original size:82 final size:81
Alignment explanation
Indices: 23457967--23458122 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
23457957 TGCTATATAA
* *
23457967 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23458032 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
23458049 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23458113 CACTTAGTGC
65 CACTTAGTGC
23458123 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23462718 original size:19 final size:19
Alignment explanation
Indices: 23462694--23462747 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
23462684 AATCTTCGAG
23462694 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23462713 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
23462732 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
23462748 AGATGTGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:23462937 original size:40 final size:38
Alignment explanation
Indices: 23462884--23462958 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
23462874 GAAAAGGGAG
*
23462884 AAAAAAATCAATAAAAAAAGGAGAACGATTGGCAGTTAAA
1 AAAAAAAGCAAT-AAAAAA-GAGAACGATTGGCAGTTAAA
*
23462924 AAAAAAAGGAATAAAAAAGAGAACGATTGGCAGTT
1 AAAAAAAGCAATAAAAAAGAGAACGATTGGCAGTT
23462959 TTTTAAAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 17 0.52
39 6 0.18
40 10 0.30
ACGTcount: A:0.59, C:0.07, G:0.20, T:0.15
Consensus pattern (38 bp):
AAAAAAAGCAATAAAAAAGAGAACGATTGGCAGTTAAA
Found at i:23467835 original size:11 final size:11
Alignment explanation
Indices: 23467819--23467851 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
23467809 TAAAAGTGAT
23467819 AAAAAGAAAAA
1 AAAAAGAAAAA
23467830 AAAAAGAAAAA
1 AAAAAGAAAAA
*
23467841 GAAAAGAAAAA
1 AAAAAGAAAAA
23467852 TGGAGAGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:23467851 original size:6 final size:6
Alignment explanation
Indices: 23467819--23467851 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
23467809 TAAAAGTGAT
23467819 AAAAAG AAAAA- AAAAAG AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
23467852 TGGAGAGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Done.