Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 10 of 126
Found at i:2676223 original size:9 final size:9
Alignment explanation
Indices: 2676182--2676236 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 9
2676172 ATTTTATGCT
2676182 TTAT-TATA
1 TTATATATA
*
2676190 TTAT-TAAA
1 TTATATATA
2676198 TTAT-TATA
1 TTATATATA
*
2676206 ATA-ATATA
1 TTATATATA
2676214 TTATATATA
1 TTATATATA
*
2676223 TTATATATC
1 TTATATATA
2676232 TTATA
1 TTATA
2676237 CTTAAAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
8 22 0.55
9 18 0.45
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATATATA
Found at i:2681233 original size:15 final size:15
Alignment explanation
Indices: 2681213--2681242 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2681203 CATTTTATTT
*
2681213 ATATTAGGATAATTA
1 ATATTAAGATAATTA
2681228 ATATTAAGATAATTA
1 ATATTAAGATAATTA
2681243 TTAGGATGAT
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:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:2681268 original size:13 final size:13
Alignment explanation
Indices: 2681250--2681274 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2681240 TTATTAGGAT
2681250 GATTTAATTTTAG
1 GATTTAATTTTAG
2681263 GATTTAATTTTA
1 GATTTAATTTTA
2681275 ATTATCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
GATTTAATTTTAG
Found at i:2686599 original size:26 final size:23
Alignment explanation
Indices: 2686553--2686603 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 23
2686543 TCAATCTTTA
2686553 TATTTTTTTATTAATTTGATCAT
1 TATTTTTTTATTAATTTGATCAT
2686576 TATTTTATTTAATTAAATTTGATCAT
1 TATTTT-TTT-ATT-AATTTGATCAT
2686602 TA
1 TA
2686604 ATCTTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 6 0.24
24 3 0.12
25 3 0.12
26 13 0.52
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (23 bp):
TATTTTTTTATTAATTTGATCAT
Found at i:2686611 original size:25 final size:24
Alignment explanation
Indices: 2686557--2686612 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
2686547 TCTTTATATT
* * *
2686557 TTTTTATTAATTTGATCATTATTT
1 TTTTAATTAATTTGATCATTAATC
2686581 TATTTAATTAAATTTGATCATTAATC
1 T-TTTAATT-AATTTGATCATTAATC
2686607 TTTTAA
1 TTTTAA
2686613 AAAAGTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 11 0.41
26 15 0.56
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTAATTAATTTGATCATTAATC
Found at i:2694649 original size:29 final size:29
Alignment explanation
Indices: 2694617--2694679 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
2694607 GATATTGATT
2694617 TTAGGACTAAATTGTGAAAAGCCTAAATA
1 TTAGGACTAAATTGTGAAAAGCCTAAATA
**
2694646 TTAGGGTTAAATTGTGAAAAGCCTAAATA
1 TTAGGACTAAATTGTGAAAAGCCTAAATA
2694675 TTAGG
1 TTAGG
2694680 GCTTGGTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (29 bp):
TTAGGACTAAATTGTGAAAAGCCTAAATA
Found at i:2694680 original size:29 final size:29
Alignment explanation
Indices: 2694624--2694680 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
2694614 ATTTTAGGAC
2694624 TAAATTGTGAAAAGCCTAAATATTAGGGT
1 TAAATTGTGAAAAGCCTAAATATTAGGGT
2694653 TAAATTGTGAAAAGCCTAAATATTAGGG
1 TAAATTGTGAAAAGCCTAAATATTAGGG
2694681 CTTGGTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (29 bp):
TAAATTGTGAAAAGCCTAAATATTAGGGT
Found at i:2696947 original size:209 final size:210
Alignment explanation
Indices: 2696516--2697299 Score: 882
Period size: 208 Copynumber: 3.7 Consensus size: 210
2696506 AAATGATCAT
* * * * * *
2696516 ACCTAATTTTATTTGAGTTAGTTGACTTCAGATCGCAACTCCTAAATATCTCAATGACCTACGTT
1 ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
* * * * *
2696581 CACATCTGATATTAT-AAGGTTTAGCTGATTTAAA-ATCACAACCTAAGTTAATTTAAGTTAG-T
66 CACAGCTAATATTATAAAGG-TTAGCTGA-TTAAAGATCGCAACCTAAGTTTATTTGAGTTAGCT
* ** * * *
2696643 TGATTTTAGGATAACAACTCCTAAATAGCTCGTTAACCTATGTTCACAACTGATATTATAGAA-G
129 T-A-TTTAAGATCGCAACTCTTAAATAGCTCGTTGACCTATGTTCACAGCTGATATTAT-GAAGG
* *
2696707 TTAGCTGATTTAAGATCGTA
191 TTAGCTGATTTAAGATTGCA
* * * * *
2696727 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAACTCGCCGACCTATGTT
1 ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
** * * * * *
2696792 TGCAGCTAATTTTTTAAAGGTTAACTGATTAAAGATTGCAACCTAAGTTTATTTTTA-TTAG-TT
66 CACAGCTAATATTATAAAGGTTAGCTGATTAAAGATCGCAACCTAAGTTTA-TTTGAGTTAGCTT
* * * * * *
2696855 ATTTAAGATCGCAACTCTTATACAGCTCGTCGACCTATGTTCATAGTTGATATTATGAAGGTTAA
130 ATTTAAGATCGCAACTCTTAAATAGCTCGTTGACCTATGTTCACAGCTGATATTATGAAGGTTAG
* *
2696920 TTGATTTAATATTGCA
195 CTGATTTAAGATTGCA
* * * * * **
2696936 ACCTAAGTTTATTTGAGTTAATTGATTTAATATCTCAACTTCTAAAGAGCTCGCTGACCTATTTT
1 ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
* * * * * *
2697001 CACATCTAATATTATAAAGGTTAGCTAATTTAATATTGCAACCTAAGTTTATTTGAGTTAGTTTA
66 CACAGCTAATATTATAAAGGTTAGCTGATTAAAGATCGCAACCTAAGTTTATTTGAGTTAGCTTA
**
2697066 TTTAAGATCGCAACTCTTAAATAGCTCGTTGACCTACATTCACAGCTGATATTA--AAGGTTAGC
131 TTTAAGATCGCAACTCTTAAATAGCTCGTTGACCTATGTTCACAGCTGATATTATGAAGGTTAGC
*
2697129 TAATTTAAGATTGCA
196 TGATTTAAGATTGCA
* *
2697144 ACCTAAGTTTATTTGAGTTAATTGATTTAATATCGCAACTCCTAAACAGCTCACTGACCTACGTT
1 ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
* * * * *
2697209 CACAGCTAATATTGTAAAGGTTAGTTGATTTAAGATCGCAACTTAAGTTTATTTGAGTTAGCTGA
66 CACAGCTAATATTATAAAGGTTAGCTGATTAAAGATCGCAACCTAAGTTTATTTGAGTTAGCTTA
* *
2697274 TTTAAGATCGCAACTCCTGAATAGCT
131 TTTAAGATCGCAACTCTTAAATAGCT
2697300 TACTGATATA
Statistics
Matches: 486, Mismatches: 81, Indels: 15
0.84 0.14 0.03
Matches are distributed among these distances:
208 166 0.34
209 163 0.34
210 56 0.12
211 93 0.19
212 8 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (210 bp):
ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
CACAGCTAATATTATAAAGGTTAGCTGATTAAAGATCGCAACCTAAGTTTATTTGAGTTAGCTTA
TTTAAGATCGCAACTCTTAAATAGCTCGTTGACCTATGTTCACAGCTGATATTATGAAGGTTAGC
TGATTTAAGATTGCA
Found at i:2697174 original size:208 final size:209
Alignment explanation
Indices: 2696516--2697299 Score: 910
Period size: 209 Copynumber: 3.7 Consensus size: 209
2696506 AAATGATCAT
* * * * * *
2696516 ACCTAATTTTATTTGAGTTAGTTGACTTCAGATCGCAACTCCTAAATATCTCAATGACCTACGTT
1 ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
* * * * * *
2696581 CACATCTGATATTAT-AAGGTTTAGCTGATTTAAAATCACAACCTAAGTTAATTTAAGTTAGTTG
66 CACAGCTAATATTATAAAGG-TTAGCTGATTTAAGATCGCAACCTAAGTTTATTTGAGTTAGTTG
* ** * * *
2696645 ATTTTAGGATAACAACTCCTAAATAGCTCGTTAACCTATGTTCACAACTGATATTATAGAAGTTA
130 A-TTTAAGATCGCAACTCCTAAATAGCTCGTTGACCTATGTTCACAGCTGATATTATA-AGGTTA
* *
2696710 GCTGATTTAAGATCGTA
193 GCTGATTTAAGATTGCA
* * * * *
2696727 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAACTCGCCGACCTATGTT
1 ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
** * * * * * *
2696792 TGCAGCTAATTTTTTAAAGGTTAACTGATTAAAGATTGCAACCTAAGTTTATTTTTA-TTAGTT-
66 CACAGCTAATATTATAAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTA-TTTGAGTTAGTTG
* * * * * * *
2696855 ATTTAAGATCGCAACTCTTATACAGCTCGTCGACCTATGTTCATAGTTGATATTATGAAGGTTAA
130 ATTTAAGATCGCAACTCCTAAATAGCTCGTTGACCTATGTTCACAGCTGATATTAT-AAGGTTAG
* *
2696920 TTGATTTAATATTGCA
194 CTGATTTAAGATTGCA
* * * * * **
2696936 ACCTAAGTTTATTTGAGTTAATTGATTTAATATCTCAACTTCTAAAGAGCTCGCTGACCTATTTT
1 ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
* * * * *
2697001 CACATCTAATATTATAAAGGTTAGCTAATTTAATATTGCAACCTAAGTTTATTTGAGTTAGTTTA
66 CACAGCTAATATTATAAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTATTTGAGTTAGTTGA
* **
2697066 TTTAAGATCGCAACTCTTAAATAGCTCGTTGACCTACATTCACAGCTGATATTA-AAGGTTAGCT
131 TTTAAGATCGCAACTCCTAAATAGCTCGTTGACCTATGTTCACAGCTGATATTATAAGGTTAGCT
*
2697130 AATTTAAGATTGCA
196 GATTTAAGATTGCA
* *
2697144 ACCTAAGTTTATTTGAGTTAATTGATTTAATATCGCAACTCCTAAACAGCTCACTGACCTACGTT
1 ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
* * * *
2697209 CACAGCTAATATTGTAAAGGTTAGTTGATTTAAGATCGCAACTTAAGTTTATTTGAGTTAGCTGA
66 CACAGCTAATATTATAAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTATTTGAGTTAGTTGA
*
2697274 TTTAAGATCGCAACTCCTGAATAGCT
131 TTTAAGATCGCAACTCCTAAATAGCT
2697300 TACTGATATA
Statistics
Matches: 484, Mismatches: 84, Indels: 13
0.83 0.14 0.02
Matches are distributed among these distances:
208 163 0.34
209 166 0.34
210 50 0.10
211 97 0.20
212 8 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (209 bp):
ACCTAAGTTTATTTGAGTTAATTGATTTAAGATCGCAACTCCTAAATAGCTCACTGACCTACGTT
CACAGCTAATATTATAAAGGTTAGCTGATTTAAGATCGCAACCTAAGTTTATTTGAGTTAGTTGA
TTTAAGATCGCAACTCCTAAATAGCTCGTTGACCTATGTTCACAGCTGATATTATAAGGTTAGCT
GATTTAAGATTGCA
Found at i:2697305 original size:105 final size:105
Alignment explanation
Indices: 2696516--2697299 Score: 862
Period size: 105 Copynumber: 7.5 Consensus size: 105
2696506 AAATGATCAT
* * * * ** *
2696516 ACCTAATTTTATTTGAGTTAGTTGACTTCAGATCGCAACTCCTAAATATCTCAATGACCTACGTT
1 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAGCTCGCTGACCTATGTT
* * **
2696581 CACATCTGATATTAT-AAGGTTTAGCTGATTTAAAATCACA
66 CACAGCTGATATTATAAAGG-TTAGCTGATTTAAGATTGCA
* * * ** * *
2696621 ACCTAAGTTAATTTAAGTTAGTTGATTTTAGGATAACAACTCCTAAATAGCTCGTTAACCTATGT
1 ACCTAAGTTTATTTGAGTTAGTTGA-TTTAAGATCGCAACTCCTAAATAGCTCGCTGACCTATGT
* * *
2696686 TCACAACTGATATTATAGAA-GTTAGCTGATTTAAGATCGTA
65 TCACAGCTGATATTATA-AAGGTTAGCTGATTTAAGATTGCA
* *
2696727 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAACTCGCCGACCTATGTT
1 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAGCTCGCTGACCTATGTT
** * * * * *
2696792 TGCAGCTAATTTTTTAAAGGTTAACTGATTAAAGATTGCA
66 CACAGCTGATATTATAAAGGTTAGCTGATTTAAGATTGCA
* * * *
2696832 ACCTAAGTTTATTTTTA-TTAGTT-ATTTAAGATCGCAACTCTTATACAGCTCG-TCGACCTATG
1 ACCTAAGTTTA-TTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAGCTCGCT-GACCTATG
* * * ** *
2696894 TTCATAGTTGATATTATGAAGGTTAATTGATTTAATATTGCA
64 TTCACAGCTGATATTATAAAGGTTAGCTGATTTAAGATTGCA
* * * * * *
2696936 ACCTAAGTTTATTTGAGTTAATTGATTTAATATCTCAACTTCTAAAGAGCTCGCTGACCTATTTT
1 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAGCTCGCTGACCTATGTT
* * * *
2697001 CACATCTAATATTATAAAGGTTAGCTAATTTAATATTGCA
66 CACAGCTGATATTATAAAGGTTAGCTGATTTAAGATTGCA
* * * **
2697041 ACCTAAGTTTATTTGAGTTAGTTTATTTAAGATCGCAACTCTTAAATAGCTCGTTGACCTACATT
1 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAGCTCGCTGACCTATGTT
*
2697106 CACAGCTGATA-T-TAAAGGTTAGCTAATTTAAGATTGCA
66 CACAGCTGATATTATAAAGGTTAGCTGATTTAAGATTGCA
* * * * *
2697144 ACCTAAGTTTATTTGAGTTAATTGATTTAATATCGCAACTCCTAAACAGCTCACTGACCTACGTT
1 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAGCTCGCTGACCTATGTT
* * * *
2697209 CACAGCTAATATTGTAAAGGTTAGTTGATTTAAGATCGCA
66 CACAGCTGATATTATAAAGGTTAGCTGATTTAAGATTGCA
* * *
2697249 ACTTAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCCTGAATAGCT
1 ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAGCT
2697300 TACTGATATA
Statistics
Matches: 567, Mismatches: 101, Indels: 22
0.82 0.15 0.03
Matches are distributed among these distances:
103 96 0.17
104 84 0.15
105 295 0.52
106 89 0.16
107 1 0.00
108 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (105 bp):
ACCTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAAATAGCTCGCTGACCTATGTT
CACAGCTGATATTATAAAGGTTAGCTGATTTAAGATTGCA
Found at i:2701969 original size:10 final size:10
Alignment explanation
Indices: 2701954--2701978 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2701944 CCATAATTTA
2701954 TGATACAAAT
1 TGATACAAAT
2701964 TGATACAAAT
1 TGATACAAAT
2701974 TGATA
1 TGATA
2701979 ATGGGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
TGATACAAAT
Found at i:2702010 original size:26 final size:26
Alignment explanation
Indices: 2701974--2702783 Score: 1620
Period size: 26 Copynumber: 31.2 Consensus size: 26
2701964 TGATACAAAT
2701974 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702000 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702026 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702052 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702078 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702104 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702130 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702156 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702182 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702208 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702234 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702260 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702286 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702312 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702338 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702364 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702390 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702416 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702442 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702468 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702494 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702520 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702546 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702572 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702598 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702624 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702650 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702676 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702702 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702728 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702754 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2702780 TGAT
1 TGAT
2702784 TGGAATTTCA
Statistics
Matches: 784, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 784 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:2707693 original size:29 final size:28
Alignment explanation
Indices: 2707660--2707724 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
2707650 ACTAAAAGGG
* *
2707660 TATACATATATGTATAGTGATATTAGAAA
1 TATACATATATATATA-TAATATTAGAAA
*
2707689 TATACTATATATATATATAATATTTGAAA
1 TATAC-ATATATATATATAATATTAGAAA
2707718 TATACAT
1 TATACAT
2707725 GAAGTGATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 20 0.62
30 10 0.31
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (28 bp):
TATACATATATATATATAATATTAGAAA
Found at i:2708002 original size:28 final size:28
Alignment explanation
Indices: 2707932--2707992 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
2707922 ATGTGATACA
2707932 TAAAAAAAATACATATATAATATGACAT
1 TAAAAAAAATACATATATAATATGACAT
*
2707960 TAAAAAAAATACATATATAATATGATAT
1 TAAAAAAAATACATATATAATATGACAT
2707988 TAAAA
1 TAAAA
2707993 CATTCACATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (28 bp):
TAAAAAAAATACATATATAATATGACAT
Found at i:2708081 original size:21 final size:21
Alignment explanation
Indices: 2708051--2708090 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2708041 ATTAATAATA
2708051 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
2708072 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
2708091 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:2708163 original size:3 final size:3
Alignment explanation
Indices: 2708149--2708246 Score: 62
Period size: 3 Copynumber: 32.7 Consensus size: 3
2708139 TACATAACAT
*
2708149 ATA ATA AAA ATA ATA AT- ATA CATA AT- ATA TATA A-A ATA CATA TATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA -ATA -ATA
* * * **
2708195 ACA A-A ACA TATA CT- ATA ATA ATA ATA ATA ATA ATA AGG ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2708239 ATA ATA AT
1 ATA ATA AT
2708247 GTAAAAAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
2 9 0.12
3 52 0.69
4 14 0.19
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:2708169 original size:28 final size:28
Alignment explanation
Indices: 2708136--2708223 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
2708126 AATATTTAAC
2708136 ATATACATAACATATAATAAAAATAATA
1 ATATACATAACATATAATAAAAATAATA
*
2708164 ATATACATAATATAT-AT-AAAATACAT-
1 ATATACATAACATATAATAAAAATA-ATA
* *
2708190 ATATAACAAAACATATACTATAATAATAATA
1 ATAT-ACATAACATATA--ATAAAAATAATA
2708221 ATA
1 ATA
2708224 ATAATAAGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 10 0.20
27 13 0.27
28 14 0.29
30 4 0.08
31 8 0.16
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (28 bp):
ATATACATAACATATAATAAAAATAATA
Found at i:2711635 original size:17 final size:18
Alignment explanation
Indices: 2711603--2711637 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2711593 AAATTTTTGT
2711603 TTTTTGCCCTCAAATTTA
1 TTTTTGCCCTCAAATTTA
*
2711621 TTTTTGCCTTC-AATTTA
1 TTTTTGCCCTCAAATTTA
2711638 GTCCCTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.20, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTTTGCCCTCAAATTTA
Found at i:2713406 original size:22 final size:21
Alignment explanation
Indices: 2713381--2713421 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2713371 TTAAAAAATA
*
2713381 AAAAAATAATATGAGCATATCT
1 AAAAAAGAAT-TGAGCATATCT
*
2713403 AAAATAGAATTGAGCATAT
1 AAAAAAGAATTGAGCATAT
2713422 TTCAGGTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (21 bp):
AAAAAAGAATTGAGCATATCT
Found at i:2714395 original size:6 final size:6
Alignment explanation
Indices: 2714384--2714408 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2714374 ACCAACCTAA
2714384 TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT T
2714409 GAACTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:2717141 original size:22 final size:20
Alignment explanation
Indices: 2717100--2717146 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
2717090 GAATCCACTA
2717100 TTTACATAATTATGTTTAAAGT
1 TTTACATAATTATG-TTAAA-T
2717122 TTTACATATATTTATG-TAAAT
1 TTTACATA-A-TTATGTTAAAT
2717143 TTTA
1 TTTA
2717147 ACACTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.22
22 12 0.52
23 1 0.04
24 5 0.22
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (20 bp):
TTTACATAATTATGTTAAAT
Found at i:2719339 original size:133 final size:131
Alignment explanation
Indices: 2719014--2719495 Score: 439
Period size: 133 Copynumber: 3.6 Consensus size: 131
2719004 TATTCAATTA
* * * * * * *
2719014 TTTTGAACAAACGGGAGATTGTAACCCGGCACGATAGGGCACTATTCCCCGAATTG-CTAAACAT
1 TTTTGAACAAACGAGAAATCGCAACCCAGCACAATAGGGCACGATT-CCCGAATTGTC-AAACAT
* * ** * * * * *
2719078 CAAACATTTCTTTCATTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCTGAAGGGATCTTCGA
64 CGAATATCGCCTTCGTTTTAAAGGGTTTTTAGAAAACATGAGTGAAATTCTGAAGGGATCTTTGA
2719143 TCG
129 TCG
* * * * * * *
2719146 TTTTGAACAAATGAAAAAACGCAACCCAGCACAGTAGGGTACGATTCTCGAATTGCCAAACATCG
1 TTTTGAACAAACGAGAAATCGCAACCCAGCACAATAGGGCACGATTCCCGAATTGTCAAACATCG
* * * ** * *
2719211 AACATCGCCTTTGTTTTAAAGGGTTTTCTTAAAAAACATGAGTGAAAACCTGAAGGAATATTTGA
66 AATATCGCCTTCGTTTTAAAGGG-TTT-TTAGAAAACATGAGTGAAATTCTGAAGGGATCTTTGA
2719276 TCG
129 TCG
* * * *
2719279 TTTTGAACAAACGAGAAATCACAACCCAGCACAATAGGGCATGATTCCCGAATTATCAAACACCG
1 TTTTGAACAAACGAGAAATCGCAACCCAGCACAATAGGGCACGATTCCCGAATTGTCAAACATCG
* * * * * *
2719344 AGTATTGCCTTCGTTTT-AAGGGATTTTTAGAAGACACGAGTGAAATTTTGAAGGGACCTTTGAT
66 AATATCGCCTTCGTTTTAAAGGG-TTTTTAGAAAACATGAGTGAAATTCTGAAGGGATCTTTGAT
**
2719408 TA
130 CG
* * * * ** *
2719410 CTTTGAGC-AACTGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGTCAAATAT
1 TTTTGAACAAAC-GAGAAATCGCAACCCAGCACAATAGGGCACGATTCC-CGAATTGTCAAACAT
2719474 CGAATATCGCCTTCGTTTTAAA
64 CGAATATCGCCTTCGTTTTAAA
2719496 TATTTATGAA
Statistics
Matches: 277, Mismatches: 67, Indels: 11
0.78 0.19 0.03
Matches are distributed among these distances:
130 3 0.01
131 97 0.35
132 75 0.27
133 102 0.37
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (131 bp):
TTTTGAACAAACGAGAAATCGCAACCCAGCACAATAGGGCACGATTCCCGAATTGTCAAACATCG
AATATCGCCTTCGTTTTAAAGGGTTTTTAGAAAACATGAGTGAAATTCTGAAGGGATCTTTGATC
G
Found at i:2722479 original size:24 final size:24
Alignment explanation
Indices: 2722452--2722498 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2722442 CTGGTTATAG
*
2722452 GCTTATGGTCGCTTCTGGCTGTTA
1 GCTTATGGTCACTTCTGGCTGTTA
*
2722476 GCTTATGGTCATTTCTGGCTGTT
1 GCTTATGGTCACTTCTGGCTGTT
2722499 CGACTAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.45
Consensus pattern (24 bp):
GCTTATGGTCACTTCTGGCTGTTA
Found at i:2724428 original size:25 final size:25
Alignment explanation
Indices: 2724351--2724505 Score: 72
Period size: 25 Copynumber: 6.3 Consensus size: 25
2724341 CAGCTCTTAC
* * *
2724351 GAGCATCCCTATATTTGGCT-CTAAT
1 GAGCTTCCCGATATATGGCTCCT-AT
* * * *
2724376 GAGCTTCCCGTTATATGGTTCTTGT
1 GAGCTTCCCGATATATGGCTCCTAT
2724401 GAGCTTCCCGATA-ACTGGCTCCTAT
1 GAGCTTCCCGATATA-TGGCTCCTAT
* * * *
2724426 GAGCTTTCTG-TTTAATGACTCTCTA-
1 GAGCTTCCCGATAT-ATGGCTC-CTAT
* *
2724451 GAGTTTCCTGATAT-TGGCTCACT-T
1 GAGCTTCCCGATATATGGCTC-CTAT
* * *
2724475 GAACTTCCCGAT-TACGGCTCTTAT
1 GAGCTTCCCGATATATGGCTCCTAT
2724499 GAGCTTC
1 GAGCTTC
2724506 TTGTTATATA
Statistics
Matches: 95, Mismatches: 26, Indels: 19
0.68 0.19 0.14
Matches are distributed among these distances:
23 2 0.02
24 30 0.32
25 56 0.59
26 7 0.07
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCCTAT
Found at i:2741426 original size:6 final size:6
Alignment explanation
Indices: 2741417--2741475 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
2741407 AGATATAGAC
* * * *
2741417 TCAGTT TCAGAT TCAGAT TTAGAT ATCATAT TCAGAT TCAGAT AGCAGAT
1 TCAGAT TCAGAT TCAGAT TCAGAT -TCAGAT TCAGAT TCAGAT -TCAGAT
*
2741467 TCATAT TCA
1 TCAGAT TCA
2741476 AATAACAGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 34 0.79
7 9 0.21
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (6 bp):
TCAGAT
Found at i:2741468 original size:19 final size:19
Alignment explanation
Indices: 2741424--2741485 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
2741414 GACTCAGTTT
* *
2741424 CAGATTCAGATTTAGATAT
1 CAGATTCAGATTCAGATAA
* *
2741443 CATATTCAGATTCAGATAG
1 CAGATTCAGATTCAGATAA
* *
2741462 CAGATTCATATTCAAATAA
1 CAGATTCAGATTCAGATAA
2741481 CAGAT
1 CAGAT
2741486 ATGCCAAGGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (19 bp):
CAGATTCAGATTCAGATAA
Found at i:2741470 original size:25 final size:25
Alignment explanation
Indices: 2741422--2741475 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
2741412 TAGACTCAGT
**
2741422 TTCAGATTCAGATTTAGATATCATA
1 TTCAGATTCAGATGCAGATATCATA
2741447 TTCAGATTCAGATAGCAGAT-TCATA
1 TTCAGATTCAGAT-GCAGATATCATA
2741472 TTCA
1 TTCA
2741476 AATAACAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (25 bp):
TTCAGATTCAGATGCAGATATCATA
Found at i:2744317 original size:21 final size:21
Alignment explanation
Indices: 2744269--2744309 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2744259 TCATAAAGCT
2744269 TATTTATATTTTAATTAATCA
1 TATTTATATTTTAATTAATCA
2744290 TATTT-TAATTTTAATTAATC
1 TATTTAT-ATTTTAATTAATC
2744310 CTCATTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTATATTTTAATTAATCA
Found at i:2746890 original size:26 final size:26
Alignment explanation
Indices: 2746832--2746883 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
2746822 TTTTAACTAA
* *
2746832 AATTAAGTTGAATTAGAGAATATATT
1 AATTAAATTGAATTAGAAAATATATT
2746858 AATTAAATTGAATTAGAAAATATATT
1 AATTAAATTGAATTAGAAAATATATT
2746884 TTTTAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAATTGAATTAGAAAATATATT
Found at i:2748134 original size:136 final size:135
Alignment explanation
Indices: 2747891--2748162 Score: 483
Period size: 136 Copynumber: 2.0 Consensus size: 135
2747881 GCTTCGAGAA
*
2747891 ATGTCAAGTTGGTTAATTGCATTGGATTCTTCCTTGAAGCTTGTTTGATGAGAGGTCCAATGATT
1 ATGTCAAGTTGGTTAATTGCATTGAATTCTTCCTTGAAGCTTGTTTGATGAGAGGTCCAATGATT
2747956 CAAGTGCCGCCAATTTTTCAAGTGAAGGTGGGATATGCCACAACTAGAATAGGTCATAAATTCGT
66 CAAGTGCCGCCAATTTTTCAAGTGAAGGTGGGATATGCCACAACTAGAATAGGTCATAAATTCGT
2748021 TTATG
131 TTATG
*
2748026 ATGTCAAGTTGGTTAATTGCATTAGAATTCTTCCTTGAAGCTTGTTTGATGA-AGGATTCAATGA
1 ATGTCAAGTTGGTTAATTGCATT-GAATTCTTCCTTGAAGCTTGTTTGATGAGAGG-TCCAATGA
* *
2748090 TTCAAGTGCCGCCAATTTTTCAAGTGAAGGTGGGATGTGCCACAACTAGAATAGGTCCTAAATTC
64 TTCAAGTGCCGCCAATTTTTCAAGTGAAGGTGGGATATGCCACAACTAGAATAGGTCATAAATTC
2748155 GTTTATG
129 GTTTATG
2748162 A
1 A
2748163 ATCTATTTAC
Statistics
Matches: 131, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
135 26 0.20
136 105 0.80
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (135 bp):
ATGTCAAGTTGGTTAATTGCATTGAATTCTTCCTTGAAGCTTGTTTGATGAGAGGTCCAATGATT
CAAGTGCCGCCAATTTTTCAAGTGAAGGTGGGATATGCCACAACTAGAATAGGTCATAAATTCGT
TTATG
Found at i:2751017 original size:18 final size:19
Alignment explanation
Indices: 2750996--2751031 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2750986 TCAGTTTTAT
*
2750996 TAAACAC-AATGTTTTTCC
1 TAAACACGAATGATTTTCC
2751014 TAAACACGAATGATTTTC
1 TAAACACGAATGATTTTC
2751032 TTTAAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (19 bp):
TAAACACGAATGATTTTCC
Found at i:2759622 original size:16 final size:17
Alignment explanation
Indices: 2759601--2759634 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2759591 CAGTCTCTAG
*
2759601 TAGTTT-ACTATAGTTT
1 TAGTTTAACTACAGTTT
2759617 TAGTTTAACTACAGTTT
1 TAGTTTAACTACAGTTT
2759634 T
1 T
2759635 CATTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (17 bp):
TAGTTTAACTACAGTTT
Found at i:2761045 original size:17 final size:17
Alignment explanation
Indices: 2761023--2761082 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
2761013 GTAGCTTGCT
2761023 CGTGTGGCCCACACACC
1 CGTGTGGCCCACACACC
* *
2761040 CGTGTGG---AC-TACT
1 CGTGTGGCCCACACACC
*
2761053 CGTGTGGCCCACACGCC
1 CGTGTGGCCCACACACC
*
2761070 TGTGTGGCCCACA
1 CGTGTGGCCCACA
2761083 TGACTTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
13 9 0.27
14 2 0.06
16 2 0.06
17 20 0.61
ACGTcount: A:0.15, C:0.38, G:0.28, T:0.18
Consensus pattern (17 bp):
CGTGTGGCCCACACACC
Found at i:2764858 original size:49 final size:49
Alignment explanation
Indices: 2764731--2765214 Score: 808
Period size: 49 Copynumber: 10.0 Consensus size: 49
2764721 CCCTTCGGGA
* *
2764731 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
2764778 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
2764825 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
2764874 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
2764923 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
2764972 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
2765021 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
2765070 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
2765119 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
2765166 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
2765213 CT
1 CT
2765215 ACGGACATTA
Statistics
Matches: 421, Mismatches: 11, Indels: 10
0.95 0.02 0.02
Matches are distributed among these distances:
46 2 0.00
47 129 0.31
49 290 0.69
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:2765513 original size:107 final size:107
Alignment explanation
Indices: 2765327--2765537 Score: 413
Period size: 107 Copynumber: 2.0 Consensus size: 107
2765317 CTTCCACATC
*
2765327 CATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTTATTCAAATATACTTCAC
1 CATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATTCAAATATACTTCAC
2765392 ATATCACATATACTATCATGTACACACTTTGTATTGGCCATT
66 ATATCACATATACTATCATGTACACACTTTGTATTGGCCATT
2765434 CATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATTCAAATATACTTCAC
1 CATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATTCAAATATACTTCAC
2765499 ATATCACATATACTATCATGTACACACTTTGTATTGGCC
66 ATATCACATATACTATCATGTACACACTTTGTATTGGCC
2765538 GAATCTACAT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (107 bp):
CATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATTCAAATATACTTCAC
ATATCACATATACTATCATGTACACACTTTGTATTGGCCATT
Found at i:2767003 original size:56 final size:56
Alignment explanation
Indices: 2766936--2767055 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
2766926 TATTAGTTTA
*
2766936 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAGCATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
2766992 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
2767048 TTGCCCAT
1 TTGCCCAT
2767056 CATCCCTTGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:2777446 original size:24 final size:23
Alignment explanation
Indices: 2777419--2777481 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 23
2777409 TAATCAACCT
2777419 TTCACTTGTCATCTTCCTTAACTC
1 TTCACTT-TCATCTTCCTTAACTC
*
2777443 TTCACCTATCATCTTCCTTAACTC
1 TTCA-CTTTCATCTTCCTTAACTC
2777467 TTCACCTTTCATCTT
1 TTCA-CTTTCATCTT
2777482 ATTGTAACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 34 0.94
25 2 0.06
ACGTcount: A:0.17, C:0.35, G:0.02, T:0.46
Consensus pattern (23 bp):
TTCACTTTCATCTTCCTTAACTC
Found at i:2792798 original size:23 final size:22
Alignment explanation
Indices: 2792770--2792845 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 22
2792760 TGTTGAGACA
*
2792770 TCAAATATAATAGGTTGGAAAGC
1 TCAAATATAATAGATTGGAAA-C
*
2792793 TCAAATATAATAGATTGTTGAGAC
1 TCAAATATAATAGATTG--GAAAC
2792817 ATCAAATATAATAGATTGGAAATC
1 -TCAAATATAATAGATTGGAAA-C
2792841 TCAAA
1 TCAAA
2792846 ATGACTTCAC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
23 24 0.52
24 2 0.04
25 20 0.43
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (22 bp):
TCAAATATAATAGATTGGAAAC
Found at i:2792827 original size:25 final size:25
Alignment explanation
Indices: 2792759--2792834 Score: 104
Period size: 25 Copynumber: 3.1 Consensus size: 25
2792749 GGAGCCGAGG
*
2792759 TTGTTGAGACATCAAATATAATAGG
1 TTGTTGAGACATCAAATATAATAGA
*
2792784 TTG--GAAAGC-TCAAATATAATAGA
1 TTGTTGAGA-CATCAAATATAATAGA
2792807 TTGTTGAGACATCAAATATAATAGA
1 TTGTTGAGACATCAAATATAATAGA
2792832 TTG
1 TTG
2792835 GAAATCTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
23 19 0.43
24 2 0.05
25 23 0.52
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (25 bp):
TTGTTGAGACATCAAATATAATAGA
Found at i:2799208 original size:21 final size:21
Alignment explanation
Indices: 2799182--2799221 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2799172 TTTGTTCGAC
* *
2799182 AAAATCTGGTTTTTTTTTTAT
1 AAAATCTGATTTTATTTTTAT
2799203 AAAATCTGATTTTATTTTT
1 AAAATCTGATTTTATTTTT
2799222 CTTTCTATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
AAAATCTGATTTTATTTTTAT
Found at i:2799290 original size:36 final size:36
Alignment explanation
Indices: 2799243--2799316 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
2799233 AGTAAGGAAA
* *
2799243 GAATTCAAAAACCGATTCAATGATGCAAGTACTTCG
1 GAATTCAAAAACCGAATCAATGATGCAAGTACTACG
2799279 GAATTCAAAAACCGAATCAATGATGCAAGTACTACG
1 GAATTCAAAAACCGAATCAATGATGCAAGTACTACG
2799315 GA
1 GA
2799317 GAAGATTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (36 bp):
GAATTCAAAAACCGAATCAATGATGCAAGTACTACG
Found at i:2807079 original size:21 final size:21
Alignment explanation
Indices: 2807053--2807093 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2807043 ATCTGCTCAA
* *
2807053 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
2807074 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
2807094 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:2810526 original size:28 final size:28
Alignment explanation
Indices: 2810470--2810534 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
2810460 TTATAAATAT
* **
2810470 TTTTATATGAATTTTATAATTTTTATAA
1 TTTTATATGTATTTTATAAAGTTTATAA
2810498 TTTTATATGTATTTT-TAAAGTTTACTAA
1 TTTTATATGTATTTTATAAAGTTTA-TAA
*
2810526 -TATATATGT
1 TTTTATATGT
2810535 GCTTACAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (28 bp):
TTTTATATGTATTTTATAAAGTTTATAA
Found at i:2812447 original size:42 final size:42
Alignment explanation
Indices: 2812399--2812479 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
2812389 TCCATGCATA
2812399 TGTATAACTTTTCATATTCAAGTCTCTTCACTCTTCATAATG
1 TGTATAACTTTTCATATTCAAGTCTCTTCACTCTTCATAATG
* *
2812441 TGTATAATTTTTCATCTTCAAGTCTCTTCACTCTTCATA
1 TGTATAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
2812480 TTCAAGTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (42 bp):
TGTATAACTTTTCATATTCAAGTCTCTTCACTCTTCATAATG
Found at i:2812483 original size:23 final size:23
Alignment explanation
Indices: 2812409--2812498 Score: 89
Period size: 23 Copynumber: 4.1 Consensus size: 23
2812399 TGTATAACTT
2812409 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * * *
2812432 TTCATA---ATGTGT-ATAATTT
1 TTCATATTCAAGTCTCTTCACTC
*
2812451 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
2812474 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
2812497 TT
1 TT
2812499 TTAACTTTTC
Statistics
Matches: 49, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
19 8 0.16
20 4 0.08
22 4 0.08
23 33 0.67
ACGTcount: A:0.22, C:0.26, G:0.06, T:0.47
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:2820179 original size:23 final size:23
Alignment explanation
Indices: 2820137--2820192 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
2820127 AAAATATTTG
* *
2820137 TAAAATTAAGTAATAATATACAA
1 TAAAATAAAATAATAATATACAA
* *
2820160 -AAACATAAAATAATACTATATAA
1 TAAA-ATAAAATAATAATATACAA
2820183 TAAAATAAAA
1 TAAAATAAAA
2820193 GAATTTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 3 0.11
23 21 0.78
24 3 0.11
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAAATAAAATAATAATATACAA
Found at i:2820937 original size:18 final size:18
Alignment explanation
Indices: 2820916--2820951 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2820906 AAAGAGAACC
2820916 GAAAGAAAAAACAAAAAA
1 GAAAGAAAAAACAAAAAA
* *
2820934 GAAAGGAAAAAGAAAAAA
1 GAAAGAAAAAACAAAAAA
2820952 TTCAAATCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.17, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAAACAAAAAA
Found at i:2837734 original size:20 final size:20
Alignment explanation
Indices: 2837709--2837747 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2837699 TTCTGCAAAT
2837709 TTAATTATAA-AAAATATATA
1 TTAATTATAATAAAA-ATATA
*
2837729 TTAATTTTAATAAAAATAT
1 TTAATTATAATAAAAATAT
2837748 TTTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTATAATAAAAATATA
Found at i:2850813 original size:20 final size:21
Alignment explanation
Indices: 2850778--2850817 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2850768 ACTATATACT
*
2850778 ATAAAAATAATTTTTTTATTC
1 ATAAAAATAATATTTTTATTC
2850799 ATAAAAA-AATATTTTTATT
1 ATAAAAATAATATTTTTATT
2850818 AAGTTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAAATAATATTTTTATTC
Found at i:2856885 original size:22 final size:22
Alignment explanation
Indices: 2856842--2856886 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2856832 AACTAATTAA
* *
2856842 ATATATTTTCATATTGATATTT
1 ATATATTTTAATATTGAAATTT
2856864 ATATATTTTAATGATT-AAATTT
1 ATATATTTTAAT-ATTGAAATTT
2856886 A
1 A
2856887 AATAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
ATATATTTTAATATTGAAATTT
Found at i:2858971 original size:5 final size:5
Alignment explanation
Indices: 2858963--2858988 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2858953 AAAAATTAAA
2858963 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
2858989 GTGAAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:2859166 original size:46 final size:46
Alignment explanation
Indices: 2859079--2859167 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
2859069 AGAAGTACAG
* * * * *
2859079 GCTTTTAGATCAACGATCATTTTTCATTGATTCACACTGAAAATGT
1 GCTTTTAGATCAACAATAACTTTTCACTGATTCACAATGAAAATGT
* **
2859125 GCTTTTAGGTCAACAATAACTTTTCACTGATTTGCAATGAAAA
1 GCTTTTAGATCAACAATAACTTTTCACTGATTCACAATGAAAA
2859168 CGCTTATAGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (46 bp):
GCTTTTAGATCAACAATAACTTTTCACTGATTCACAATGAAAATGT
Found at i:2859272 original size:17 final size:17
Alignment explanation
Indices: 2859241--2859275 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2859231 TATTTTAATC
**
2859241 TTTTAAATTTTTAAAAA
1 TTTTAAATTAATAAAAA
2859258 TTTTAAATTAATAAAAA
1 TTTTAAATTAATAAAAA
2859275 T
1 T
2859276 AAAATTACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTAAATTAATAAAAA
Found at i:2860097 original size:5 final size:5
Alignment explanation
Indices: 2860089--2860114 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2860079 AAAAATTAAA
2860089 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
2860115 GTGAAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:2860292 original size:46 final size:46
Alignment explanation
Indices: 2860205--2860293 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
2860195 AGAAGTACAG
* * * * *
2860205 GCTTTTAGATCAACGATCATTTTTCATTGATTCACACTGAAAATGT
1 GCTTTTAGATCAACAATAACTTTTCACTGATTCACAATGAAAATGT
* **
2860251 GCTTTTAGGTCAACAATAACTTTTCACTGATTTGCAATGAAAA
1 GCTTTTAGATCAACAATAACTTTTCACTGATTCACAATGAAAA
2860294 CGCTTATAGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (46 bp):
GCTTTTAGATCAACAATAACTTTTCACTGATTCACAATGAAAATGT
Found at i:2860398 original size:17 final size:17
Alignment explanation
Indices: 2860367--2860401 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2860357 TATTTTAATC
**
2860367 TTTTAAATTTTTAAAAA
1 TTTTAAATTAATAAAAA
2860384 TTTTAAATTAATAAAAA
1 TTTTAAATTAATAAAAA
2860401 T
1 T
2860402 AAAATTACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTAAATTAATAAAAA
Found at i:2863611 original size:27 final size:28
Alignment explanation
Indices: 2863567--2863632 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
2863557 AAAAGTTGGT
* *
2863567 AAAAAAAAT-TTGGGCCCTTAAAAGCTA
1 AAAAAAAATATTGGACCCTTAAAAACTA
*
2863594 AAAAAAAATATT-GACCCTTAAAAACTG
1 AAAAAAAATATTGGACCCTTAAAAACTA
*
2863621 AAAAATAATATT
1 AAAAAAAATATT
2863633 TTAGACCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (28 bp):
AAAAAAAATATTGGACCCTTAAAAACTA
Found at i:2863823 original size:9 final size:9
Alignment explanation
Indices: 2863811--2863911 Score: 139
Period size: 9 Copynumber: 11.2 Consensus size: 9
2863801 ATTCGGTCGG
2863811 TTAACCGAA
1 TTAACCGAA
2863820 TTAACCGAA
1 TTAACCGAA
*
2863829 TTAACCTAA
1 TTAACCGAA
2863838 TTAACCGAA
1 TTAACCGAA
* *
2863847 GTACCCGAA
1 TTAACCGAA
2863856 TTAACCGAA
1 TTAACCGAA
*
2863865 TTATCCGAA
1 TTAACCGAA
2863874 TTAACCGAA
1 TTAACCGAA
* *
2863883 TTACCCAAA
1 TTAACCGAA
*
2863892 TTACCCGAA
1 TTAACCGAA
2863901 TTAACCGAA
1 TTAACCGAA
2863910 TT
1 TT
2863912 GAATCATTAC
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 80 1.00
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.25
Consensus pattern (9 bp):
TTAACCGAA
Found at i:2864054 original size:18 final size:18
Alignment explanation
Indices: 2864014--2864057 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2864004 AATTTTTATT
**
2864014 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
2864032 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
2864050 CTTGGGTT
1 ATTGGGTT
2864058 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:2866643 original size:31 final size:30
Alignment explanation
Indices: 2866581--2866647 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
2866571 AGAACTTTTT
* * *
2866581 CTAAATAAAAACATTTGAATAGTTTAGTGA
1 CTAAATAAAAACATTTGAATAATTCAATGA
*
2866611 CTTAAATGAAAAC-TTTCGAATAATTCAATGA
1 C-TAAATAAAAACATTT-GAATAATTCAATGA
2866642 CTAAAT
1 CTAAAT
2866648 TGTAACTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (30 bp):
CTAAATAAAAACATTTGAATAATTCAATGA
Found at i:2867469 original size:28 final size:31
Alignment explanation
Indices: 2867414--2867474 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
2867404 AAATTTGTTA
2867414 TTATATATTTTTAAAAATATGTATTTAC-TT
1 TTATATATTTTTAAAAATATGTATTTACGTT
**
2867444 TTATATATTTTTAAATTTAT-TA-TTACGTT
1 TTATATATTTTTAAAAATATGTATTTACGTT
2867473 TT
1 TT
2867475 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 6 0.21
30 18 0.64
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (31 bp):
TTATATATTTTTAAAAATATGTATTTACGTT
Found at i:2869678 original size:28 final size:28
Alignment explanation
Indices: 2869620--2869678 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
2869610 ACATTTTTTC
* **
2869620 TTAAATTGGTACCTAAGCTTTTTTTAGG
1 TTAAATTGGTACCTAAGATTTTTAAAGG
*
2869648 TTAAATTGGTACCTAA-ATTTATTAAATG
1 TTAAATTGGTACCTAAGATTT-TTAAAGG
2869676 TTA
1 TTA
2869679 TACAAATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (28 bp):
TTAAATTGGTACCTAAGATTTTTAAAGG
Found at i:2870133 original size:31 final size:31
Alignment explanation
Indices: 2870096--2870167 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
2870086 AAAAAGTAAG
* *
2870096 TTTAAGTACCAATTTAAGAAAAAGTGTCAAA
1 TTTAAGTACCAATTTAAGAAAAAATATCAAA
*
2870127 TTTAAGTACCAATTTAAGAAAAAATATCAAG
1 TTTAAGTACCAATTTAAGAAAAAATATCAAA
*
2870158 TTCAAGTACC
1 TTTAAGTACC
2870168 TAATGTTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.29
Consensus pattern (31 bp):
TTTAAGTACCAATTTAAGAAAAAATATCAAA
Found at i:2875483 original size:21 final size:22
Alignment explanation
Indices: 2875459--2875514 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
2875449 AAATTGGAAT
2875459 AAAATTAATATTTACTATTTA-
1 AAAATTAATATTTACTATTTAC
* *
2875480 AAAAAT-ATCATCTACTATTTAGC
1 AAAATTAAT-ATTTACTATTTA-C
2875503 AAAATTAATATT
1 AAAATTAATATT
2875515 AAGTCTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 16 0.59
23 7 0.26
24 2 0.07
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATTAATATTTACTATTTAC
Found at i:2882013 original size:18 final size:18
Alignment explanation
Indices: 2881976--2882014 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2881966 ATCTGACTCA
*
2881976 ATTAAAATTATTTTTTAT
1 ATTAAAATTATTTTTCAT
2881994 ATTAAAA-TATTTTTACAT
1 ATTAAAATTATTTTT-CAT
2882012 ATT
1 ATT
2882015 TTAGTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAAAATTATTTTTCAT
Found at i:2884062 original size:19 final size:19
Alignment explanation
Indices: 2884031--2884070 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
2884021 TACGTTAGTG
2884031 TAATTTTTATATTCAATTT
1 TAATTTTTATATTCAATTT
*
2884050 TAATTATTT-TATTTAATTT
1 TAATT-TTTATATTCAATTT
2884069 TA
1 TA
2884071 TGTTGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTTATATTCAATTT
Found at i:2891763 original size:223 final size:223
Alignment explanation
Indices: 2891375--2891827 Score: 897
Period size: 223 Copynumber: 2.0 Consensus size: 223
2891365 AGCTTGAAAC
2891375 TCAACTCGAGCTCAATTCAAAATAAAGATCAAACTACTCAAGCTCATTTGATTAGACTTGTTTAT
1 TCAACTCGAGCTCAATTCAAAATAAAGATCAAACTACTCAAGCTCATTTGATTAGACTTGTTTAT
2891440 CCGATTAAAGTAAGCTCGATTCTCAAACTCAACCTCAAACTCAATTGTTTGAGCTCAATTTTAAT
66 CCGATTAAAGTAAGCTCGATTCTCAAACTCAACCTCAAACTCAATTGTTTGAGCTCAATTTTAAT
2891505 CTGAAAATTATGTTGATTTTAAGTTCAAGCTTGATTTGACGTACTAAAACTATAATCGAGCTAAG
131 CTGAAAATTATGTTGATTTTAAGTTCAAGCTTGATTTGACGTACTAAAACTATAATCGAGCTAAG
*
2891570 TTGAATTTAAGTTCTAATAAGTTTGAAT
196 TTGAATTTAAATTCTAATAAGTTTGAAT
2891598 TCAACTCGAGCTCAATTCAAAATAAAGATCAAACTACTCAAGCTCATTTGATTAGACTTGTTTAT
1 TCAACTCGAGCTCAATTCAAAATAAAGATCAAACTACTCAAGCTCATTTGATTAGACTTGTTTAT
2891663 CCGATTAAAGTAAGCTCGATTCTCAAACTCAACCTCAAACTCAATTGTTTGAGCTCAATTTTAAT
66 CCGATTAAAGTAAGCTCGATTCTCAAACTCAACCTCAAACTCAATTGTTTGAGCTCAATTTTAAT
2891728 CTGAAAATTATGTTGATTTTAAGTTCAAGCTTGATTTGACGTACTAAAACTATAATCGAGCTAAG
131 CTGAAAATTATGTTGATTTTAAGTTCAAGCTTGATTTGACGTACTAAAACTATAATCGAGCTAAG
2891793 TTGAATTTAAATTCTAATAAGTTTGAAT
196 TTGAATTTAAATTCTAATAAGTTTGAAT
2891821 TCAACTC
1 TCAACTC
2891828 AAAATTCAAA
Statistics
Matches: 229, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
223 229 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (223 bp):
TCAACTCGAGCTCAATTCAAAATAAAGATCAAACTACTCAAGCTCATTTGATTAGACTTGTTTAT
CCGATTAAAGTAAGCTCGATTCTCAAACTCAACCTCAAACTCAATTGTTTGAGCTCAATTTTAAT
CTGAAAATTATGTTGATTTTAAGTTCAAGCTTGATTTGACGTACTAAAACTATAATCGAGCTAAG
TTGAATTTAAATTCTAATAAGTTTGAAT
Found at i:2892126 original size:140 final size:139
Alignment explanation
Indices: 2891869--2892126 Score: 410
Period size: 140 Copynumber: 1.8 Consensus size: 139
2891859 CGATTCAACC
* *
2891869 TAAAGATCAAACTGCCCTTTACAACTTCCAAATTCAGTTTTAGCTAACAATTTACTACTAGCCAT
1 TAAAGATCAAACTGCCCTTTACAAATTCCAAATTCAGTTTTAGCTAACAATTTACTACTAACCAT
*
2891934 AATTGAGCCAAGTTGAACTGAAGTTCTAATAAATTTGAATTCAACTCAAAATTTGGAGCTTGAAT
66 AATTGAGCCAAGTTGAACTGAAATTCTAATAAATTTGAATTCAACTCAAAATTTGGAGCTTGAAT
2891999 TTTAACTAA
131 TTTAACTAA
**
2892008 TAAAGATCAAACTGCTTTTTACAAATTCCAAATTCAGTTTTAGCTAAC-ATTTACTACTCTAACC
1 TAAAGATCAAACTGCCCTTTACAAATTCCAAATTCAGTTTTAGCTAACAATTTACTA--CTAACC
* * * *
2892072 GTAATTGAGCCAAGTTGAACTGAAATTCTAATGAATTTGAATTTAACTCGAAATT
64 ATAATTGAGCCAAGTTGAACTGAAATTCTAATAAATTTGAATTCAACTCAAAATT
2892127 CAACTCGAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
138 8 0.07
139 45 0.42
140 55 0.51
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (139 bp):
TAAAGATCAAACTGCCCTTTACAAATTCCAAATTCAGTTTTAGCTAACAATTTACTACTAACCAT
AATTGAGCCAAGTTGAACTGAAATTCTAATAAATTTGAATTCAACTCAAAATTTGGAGCTTGAAT
TTTAACTAA
Found at i:2892687 original size:16 final size:17
Alignment explanation
Indices: 2892658--2892695 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2892648 TAACTTCAAA
2892658 CAAAAACTAAAGAAAAT
1 CAAAAACTAAAGAAAAT
*
2892675 CAAAAAC-AGAGAAAAT
1 CAAAAACTAAAGAAAAT
*
2892691 TAAAA
1 CAAAA
2892696 GATTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.71, C:0.11, G:0.08, T:0.11
Consensus pattern (17 bp):
CAAAAACTAAAGAAAAT
Found at i:2893506 original size:12 final size:12
Alignment explanation
Indices: 2893489--2893519 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2893479 TATTCGTTTG
2893489 TTGTTTTAATAT
1 TTGTTTTAATAT
2893501 TTGTTTTAATAT
1 TTGTTTTAATAT
2893513 TT-TTTTA
1 TTGTTTTA
2893520 TTTAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:2894557 original size:12 final size:12
Alignment explanation
Indices: 2894540--2894565 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2894530 TCTTAATGAC
2894540 TATATATATATT
1 TATATATATATT
2894552 TATATATATATT
1 TATATATATATT
2894564 TA
1 TA
2894566 AATTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATATATATT
Found at i:2903237 original size:23 final size:24
Alignment explanation
Indices: 2903186--2903237 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 24
2903176 TAGGGAAACG
* *
2903186 AATT-AAATTGTAATTTTTACAAT
1 AATTAAAAATGTAATTTTTAAAAT
*
2903209 -AGTAAAAATGTAA-TTTTAAAAT
1 AATTAAAAATGTAATTTTTAAAAT
2903231 AATTAAA
1 AATTAAA
2903238 TTAAAACTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (24 bp):
AATTAAAAATGTAATTTTTAAAAT
Found at i:2922289 original size:81 final size:82
Alignment explanation
Indices: 2922175--2922340 Score: 316
Period size: 81 Copynumber: 2.0 Consensus size: 82
2922165 TAATCAAATT
2922175 AATTAGCTACAACATCTTTTTCACTAATAAATTAATTAAAATTGTGTTT-AAAAAAACAGCATTG
1 AATTAGCTACAACATCTTTTTCACTAATAAATTAATTAAAATTGTGTTTAAAAAAAACAGCATTG
2922239 AGGGCATGACTCTTTTG
66 AGGGCATGACTCTTTTG
2922256 AATTAGCTACAACATCTTTTTCACTAATAAATTAATTAAAATTGTGTTTAAAAAAAAACAGCATT
1 AATTAGCTACAACATCTTTTTCACTAATAAATTAATTAAAATTGTGTTT-AAAAAAAACAGCATT
2922321 GAGGGCATGACTCTTTTG
65 GAGGGCATGACTCTTTTG
2922339 AA
1 AA
2922341 AAAGTCTTTA
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
81 49 0.59
83 34 0.41
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (82 bp):
AATTAGCTACAACATCTTTTTCACTAATAAATTAATTAAAATTGTGTTTAAAAAAAACAGCATTG
AGGGCATGACTCTTTTG
Found at i:2922651 original size:24 final size:27
Alignment explanation
Indices: 2922624--2922681 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
2922614 AGATGGTTAT
*
2922624 ATATAAAATT-TTAATAAAT-AA-GAA
1 ATATAAAATTATTAAAAAATCAATGAA
2922648 ATATAGAAAATTATTAAAAAATCAATGAA
1 ATAT--AAAATTATTAAAAAATCAATGAA
2922677 ATATA
1 ATATA
2922682 TATATAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 4 0.14
26 6 0.21
27 9 0.32
28 2 0.07
29 7 0.25
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (27 bp):
ATATAAAATTATTAAAAAATCAATGAA
Found at i:2926523 original size:89 final size:89
Alignment explanation
Indices: 2926372--2927022 Score: 1014
Period size: 89 Copynumber: 7.3 Consensus size: 89
2926362 GAGTAGGTTG
* * *
2926372 AAAGATAACAGATCTTGCCTGCCCATACTGATGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
2926437 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
2926461 AAAGATAACAGATATTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGTAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
2926526 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
2926550 AAAGATAACAGATATTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGTAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
2926615 TCATGTACTGGCATGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* *
2926639 AAAGATAACAGATATTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGTAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
2926704 TCATGTACTGGCATGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * *
2926728 AAAGATAACAGATCTTGCCTTCCCATACTGGCGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
2926793 TCACGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * * * * *
2926817 AAAGATACCAAATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAACAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
*
2926882 TCATGTACTGGCGTGAAGTACATC
66 TCATGTACTGGCGTGAAGTAGATC
* * * * * *
2926906 AAAGATACCAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAACAGATCTTGTCT
1 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
2926971 TCATGTACTGGCGTGAAGTAGATC
66 TCATGTACTGGCGTGAAGTAGATC
* * *
2926995 AAAGATACCAGATCTTGTCTCCCCATAC
1 AAAGATAACAGATCTTGCCTTCCCATAC
2927023 ATACACATTT
Statistics
Matches: 535, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 535 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
AAAGATAACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTGTCT
TCATGTACTGGCGTGAAGTAGATC
Found at i:2932076 original size:32 final size:29
Alignment explanation
Indices: 2932004--2932079 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 29
2931994 GTCTAAAAGT
* *
2932004 ACCTAGTTGGTACCTTAACTTTTTTTCGA
1 ACCTAGTTGGTACCTGAACTTTATTTCGA
*
2932033 ACCTAGTTGGTACCTGAACTTGTATTTCGTC
1 ACCTAGTTGGTACCTGAACTT-TATTTCG-A
*
2932064 ACTTAGGTTGGTACCT
1 ACCTA-GTTGGTACCT
2932080 CTGTGCTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.50
30 6 0.15
31 4 0.10
32 10 0.25
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (29 bp):
ACCTAGTTGGTACCTGAACTTTATTTCGA
Found at i:2935814 original size:24 final size:27
Alignment explanation
Indices: 2935787--2935844 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
2935777 AGATGGTTAT
*
2935787 ATATAAAATT-TTAATAAAT-AA-GAA
1 ATATAAAATTATTAAAAAATCAATGAA
2935811 ATATAGAAAATTATTAAAAAATCAATGAA
1 ATAT--AAAATTATTAAAAAATCAATGAA
2935840 ATATA
1 ATATA
2935845 TATATAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 4 0.14
26 6 0.21
27 9 0.32
28 2 0.07
29 7 0.25
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (27 bp):
ATATAAAATTATTAAAAAATCAATGAA
Found at i:2944031 original size:91 final size:91
Alignment explanation
Indices: 2943922--2944134 Score: 372
Period size: 91 Copynumber: 2.3 Consensus size: 91
2943912 TTAAATATCT
2943922 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
* *
2943987 ATTATATTTAATATTAATTATTTTAA
66 ATTATATGTAATAATAATTATTTTAA
*
2944013 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
2944078 ATTATATGTAATAATAATTATTTTAA
66 ATTATATGTAATAATAATTATTTTAA
* * *
2944104 ATTATACAAATTCATATAAGATAATTTATTA
1 ATTGTATAAATTCATATAAGAAAATTTATTA
2944135 GTTATAATTA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (91 bp):
ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAA
ATTATATGTAATAATAATTATTTTAA
Found at i:2944054 original size:44 final size:45
Alignment explanation
Indices: 2943922--2944055 Score: 132
Period size: 44 Copynumber: 3.0 Consensus size: 45
2943912 TTAAATATCT
2943922 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTA-GA
* * * * * **
2943968 AAT-TATATA-TCATTATTAA-ATTATATTTAATATTAATTATTTTA-A
1 ATTGTATAAATTCA-TA-TAAGA--AAATTTATTATCAAGAATTTTAGA
2944013 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
2944056 TGAAATTATA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
44 20 0.30
45 14 0.21
46 13 0.19
47 20 0.30
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (45 bp):
ATTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTAGA
Found at i:2944103 original size:26 final size:28
Alignment explanation
Indices: 2944049--2944109 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
2944039 TATTATCAAG
* *
2944049 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
2944077 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
2944103 AATTATA
1 AATTATA
2944110 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:2944109 original size:44 final size:43
Alignment explanation
Indices: 2943967--2944109 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
2943957 GAATTTTATG
* *
2943967 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
2944011 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
2944058 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
2944102 AAATTATA
1 AAATTATA
2944110 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:2944197 original size:54 final size:55
Alignment explanation
Indices: 2944139--2944566 Score: 129
Period size: 54 Copynumber: 7.3 Consensus size: 55
2944129 TTATTAGTTA
*
2944139 TAATTATTTTAAATTT-TATTAAATCATATATTTTAATTAAAATATATTTAACAT
1 TAATTATTTTAAATTTATATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * * * * * **
2944193 TAATTAGTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTTTAAATT-TATATTA-A--ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
2944258 T
55 T
* * * *
2944259 TAATTA-TTAAGAATTT-TATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTTA-AATTTATATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * * * * * *
2944313 TAATTATGTT-AATTTATATTTTATAGTATCATATAGTATGATTTGAGTAAAT-TCATATAAGAA
1 TAATTATTTTAAATTTATA--TTA-A--ATCATATA-TTTTAATT-A--AAATAT-ATTTAATAT
* * * *
2944376 T-ATTGATTATTAATATTT-TATTAAATTATATATTTTATTTATAATATATTTAATAA
1 TAATT-ATT-TTAA-ATTTATATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * * **
2944432 TAATTATGTT-AATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
1 TAATTATTTTAAATTTATA--TTA-A--ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAAT
2944496 AT
54 AT
* ** * *
2944498 TGATTATTAAAAATTT-TATTAAATTATATATTTTAATTATAATATATTTAATAAT
1 TAATTATTTTAAATTTATATTAAATCATATATTTTAATTAAAATATATTTAAT-AT
2944553 T-ATTATGTTTAAAT
1 TAATTAT-TTTAAAT
2944567 ATGATTAAAT
Statistics
Matches: 275, Mismatches: 52, Indels: 93
0.65 0.12 0.22
Matches are distributed among these distances:
53 9 0.03
54 36 0.13
55 20 0.07
56 25 0.09
57 11 0.04
58 1 0.00
59 34 0.12
60 29 0.11
61 21 0.08
62 5 0.02
63 23 0.08
64 11 0.04
65 15 0.05
66 30 0.11
67 5 0.02
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (55 bp):
TAATTATTTTAAATTTATATTAAATCATATATTTTAATTAAAATATATTTAATAT
Found at i:2944310 original size:15 final size:15
Alignment explanation
Indices: 2944275--2944326 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
2944265 TTAAGAATTT
*
2944275 TATTAAATTAT-ATA
1 TATTTAATTATAATA
2944289 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
2944303 TATTTAATAATAAT-
1 TATTTAATTATAATA
2944317 TATGTTAATT
1 TAT-TTAATT
2944327 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:2944422 original size:16 final size:17
Alignment explanation
Indices: 2944388--2944426 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
2944378 TTGATTATTA
*
2944388 ATATTTTATTAAATTAT
1 ATATTTTATTAAATAAT
*
2944405 ATATTTTATT-TATAAT
1 ATATTTTATTAAATAAT
2944421 ATATTT
1 ATATTT
2944427 AATAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTTATTAAATAAT
Found at i:2944446 original size:119 final size:119
Alignment explanation
Indices: 2944149--2944561 Score: 693
Period size: 120 Copynumber: 3.5 Consensus size: 119
2944139 TAATTATTTT
* * * * * *
2944149 AAATTTTATTAAATCATATATTTTAATTAAAATATATTTAACATTAATTA-GTTCAAATTATCTT
1 AAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATT
*
2944213 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTA
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTA
2944268 AGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
1 A-AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
*
2944333 TTATAGTATCATATAGTATGATTTGAGTAAATTCATATAAGAATATTGATTATTA
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTA
* *
2944388 ATATTTTATTAAATTATATATTTTATTTATAATATATTTAATAATAATTATGTTAATTTATATTT
1 AAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTT
2944453 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATT-A
*
2944508 AAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTT
1 AAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
2944562 TAAATATGAT
Statistics
Matches: 277, Mismatches: 14, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
119 115 0.42
120 159 0.57
121 3 0.01
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (119 bp):
AAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTA
Found at i:2944789 original size:45 final size:44
Alignment explanation
Indices: 2944709--2944798 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
2944699 ACCTCTATTC
*
2944709 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCATTA
* *
2944753 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTAATCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTAATCCATTA
2944798 C
1 C
2944799 GCCTCTATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.39
45 24 0.59
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCATTA
Found at i:2944799 original size:16 final size:16
Alignment explanation
Indices: 2944778--2944810 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2944768 TTGATTTGCT
2944778 ATTACGCCTCTAATCC
1 ATTACGCCTCTAATCC
*
2944794 ATTACGCCTCTATTCC
1 ATTACGCCTCTAATCC
2944810 A
1 A
2944811 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.06, T:0.33
Consensus pattern (16 bp):
ATTACGCCTCTAATCC
Found at i:2946550 original size:30 final size:30
Alignment explanation
Indices: 2946516--2946679 Score: 129
Period size: 30 Copynumber: 5.5 Consensus size: 30
2946506 GGCAAAAAAA
*
2946516 TAAAAATTACATTTTAACCCCTATACTTTT
1 TAAAAATTACATTTTAACCCCTAAACTTTT
* * *
2946546 TAAAATTTACATTTTGA-CCTTAAACTTTT
1 TAAAAATTACATTTTAACCCCTAAACTTTT
* * * *
2946575 CCAAAATTTACATTTTGACCCC-AAACTTTGC
1 -TAAAAATTACATTTTAACCCCTAAACTTT-T
* * * *
2946606 T-AAAATTACATTTCAACCCTTAACCTTTC
1 TAAAAATTACATTTTAACCCCTAAACTTTT
* * *
2946635 TCAAAATTACACTTTAACACCTAAAC-TTT
1 TAAAAATTACATTTTAACCCCTAAACTTTT
*
2946664 CAAGAAATTACATTTT
1 TAA-AAATTACATTTT
2946680 GGCCCATATT
Statistics
Matches: 106, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
29 30 0.28
30 74 0.70
31 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (30 bp):
TAAAAATTACATTTTAACCCCTAAACTTTT
Found at i:2946589 original size:60 final size:59
Alignment explanation
Indices: 2946518--2946680 Score: 170
Period size: 60 Copynumber: 2.7 Consensus size: 59
2946508 CAAAAAAATA
* *
2946518 AAAATTACATTTTAACCCCTATACTTTTTAAAATTTACATTTTGA-CCTTAAACTTT-TCC
1 AAAATTACATTTTAACCCCTAAACTTTTTAAAA-TTACATTTTGACCCTTAACCTTTCT-C
* * **
2946577 AAAATTTACATTTTGACCCC-AAACTTTGCTAAAATTACATTTCAACCCTTAACCTTTCTC
1 AAAA-TTACATTTTAACCCCTAAACTTT-TTAAAATTACATTTTGACCCTTAACCTTTCTC
* * **
2946637 AAAATTACACTTTAACACCTAAACTTTCAAGAAATTACATTTTG
1 AAAATTACATTTTAACCCCTAAACTTTTTA-AAATTACATTTTG
2946681 GCCCATATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
59 33 0.38
60 52 0.60
61 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (59 bp):
AAAATTACATTTTAACCCCTAAACTTTTTAAAATTACATTTTGACCCTTAACCTTTCTC
Found at i:2946618 original size:89 final size:89
Alignment explanation
Indices: 2946518--2946709 Score: 205
Period size: 89 Copynumber: 2.1 Consensus size: 89
2946508 CAAAAAAATA
* * * *
2946518 AAAATTACATTTTAACCCCTATA-CTTT-TTAAAATTTACATTTTGAC-CTTAAACTTTTCCAA-
1 AAAATTACATTTTAACCCCTA-ACCTTTCTCAAAA-TTACACTTTAACACCTAAAC-TTT-CAAG
*
2946579 AATTTACATTTTGACCCCA-AACTTTGCT
62 AAATTACATTTTG-CCCCATAACTTTGCT
* *
2946607 AAAATTACATTTCAACCCTTAACCTTTCTCAAAATTACACTTTAACACCTAAACTTTCAAGAAAT
1 AAAATTACATTTTAACCCCTAACCTTTCTCAAAATTACACTTTAACACCTAAACTTTCAAGAAAT
* **
2946672 TACATTTTGGCCCATATTTTTGCT
66 TACATTTTGCCCCATAACTTTGCT
2946696 AAAATTACACTTTT
1 AAAATTACA-TTTT
2946710 GCCCCAAAAG
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
88 8 0.09
89 64 0.74
90 14 0.16
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.40
Consensus pattern (89 bp):
AAAATTACATTTTAACCCCTAACCTTTCTCAAAATTACACTTTAACACCTAAACTTTCAAGAAAT
TACATTTTGCCCCATAACTTTGCT
Found at i:2947354 original size:3 final size:3
Alignment explanation
Indices: 2947346--2947403 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
2947336 GGCCGAACAG
*
2947346 AGA AGA AGA AGA AGA AGA A-A A-A AG- AGT AGA A-A AGA AGGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA
*
2947388 AAA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
2947404 AGAAAAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 8 0.17
3 37 0.77
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:2947534 original size:27 final size:28
Alignment explanation
Indices: 2947500--2947557 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
2947490 CGACCCAGCA
2947500 GCAGCCCAACAGCAGCC-CAGTGCGCAG
1 GCAGCCCAACAGCAGCCACAGTGCGCAG
*
2947527 GCAGCCCAACAGCAGCCAGCAGTGTGCAG
1 GCAGCCCAACAGCAGCCA-CAGTGCGCAG
2947556 GC
1 GC
2947558 CCAGCAGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 17 0.61
29 11 0.39
ACGTcount: A:0.26, C:0.38, G:0.31, T:0.05
Consensus pattern (28 bp):
GCAGCCCAACAGCAGCCACAGTGCGCAG
Found at i:2947614 original size:10 final size:9
Alignment explanation
Indices: 2947598--2947641 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
2947588 AAAAAACAGA
2947598 AGAAAAAAG
1 AGAAAAAAG
*
2947607 AGATAAAAAA
1 AGA-AAAAAG
*
2947617 AGAAAAGAG
1 AGAAAAAAG
2947626 AG-AAAAAG
1 AGAAAAAAG
2947634 AGAAAAAA
1 AGAAAAAA
2947642 AAGGGTTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 7 0.24
9 14 0.48
10 8 0.28
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (9 bp):
AGAAAAAAG
Found at i:2947621 original size:19 final size:19
Alignment explanation
Indices: 2947597--2947641 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
2947587 AAAAAAACAG
*
2947597 AAGAAAAAAGAGATAAAAA
1 AAGAAAAAAGAGAGAAAAA
2947616 AAG--AAAAGAGAGAAAAA
1 AAGAAAAAAGAGAGAAAAA
*
2947633 GAGAAAAAA
1 AAGAAAAAA
2947642 AAGGGTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 15 0.68
19 7 0.32
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAGAGAGAAAAA
Found at i:2947631 original size:27 final size:26
Alignment explanation
Indices: 2947585--2947644 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
2947575 AGCAGGCCAG
*
2947585 AAAAAAA-AACAGAAGAAAAAAGAGA
1 AAAAAAAGAAAAGAAGAAAAAAGAGA
2947610 TAAAAAAAGAAAAG-AGAGAAAAAGAGA
1 -AAAAAAAGAAAAGAAGA-AAAAAGAGA
2947637 AAAAAAAG
1 AAAAAAAG
2947645 GGTTCAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 18 0.58
27 13 0.42
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (26 bp):
AAAAAAAGAAAAGAAGAAAAAAGAGA
Found at i:2947988 original size:12 final size:11
Alignment explanation
Indices: 2947967--2947991 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2947957 AATTGTAAAT
2947967 ATTCAAAAAAA
1 ATTCAAAAAAA
2947978 ATTCAAAAAAA
1 ATTCAAAAAAA
2947989 ATT
1 ATT
2947992 TTCGTGTTTT
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
ATTCAAAAAAA
Found at i:2948044 original size:20 final size:20
Alignment explanation
Indices: 2948016--2948063 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2948006 TTTTCGTGTC
*
2948016 TTCAGAAAAAAATTTCGT-AT
1 TTCA-AAAAAAAATTCGTGAT
* *
2948036 TTCAAAAAAATATTCGTGTT
1 TTCAAAAAAAAATTCGTGAT
2948056 TTCAAAAA
1 TTCAAAAA
2948064 TAATGCAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.35
Consensus pattern (20 bp):
TTCAAAAAAAAATTCGTGAT
Found at i:2948045 original size:19 final size:21
Alignment explanation
Indices: 2948003--2948063 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
2947993 TCGTGTTTTG
*
2948003 AAATTTTCGTG-TCTTCAGAAAA
1 AAATATTCGTGAT-TTCA-AAAA
2948025 AAAT-TTCGT-ATTTC-AAAA
1 AAATATTCGTGATTTCAAAAA
*
2948043 AAATATTCGTGTTTTCAAAAA
1 AAATATTCGTGATTTCAAAAA
2948064 TAATGCAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
18 8 0.24
19 5 0.15
20 7 0.21
21 10 0.29
22 4 0.12
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (21 bp):
AAATATTCGTGATTTCAAAAA
Found at i:2948260 original size:18 final size:18
Alignment explanation
Indices: 2948239--2948318 Score: 92
Period size: 18 Copynumber: 4.4 Consensus size: 18
2948229 GCATCCGTTA
* *
2948239 TTCAAAATTTTTCATGTT
1 TTCAAAAATTTTCGTGTT
*
2948257 TTCAAAAAATTTCTGTGTT
1 TTCAAAAATTTTC-GTGTT
*
2948276 TT-AAAAATTTCCGTGTT
1 TTCAAAAATTTTCGTGTT
2948293 TT-AAAAATTTTTCGTGTT
1 TTCAAAAA-TTTTCGTGTT
2948311 TTCAAAAA
1 TTCAAAAA
2948319 AATAATTGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
17 12 0.23
18 30 0.57
19 11 0.21
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.49
Consensus pattern (18 bp):
TTCAAAAATTTTCGTGTT
Found at i:2948283 original size:17 final size:17
Alignment explanation
Indices: 2948261--2948318 Score: 80
Period size: 17 Copynumber: 3.3 Consensus size: 17
2948251 CATGTTTTCA
2948261 AAAAATTTCTGTGTTTT
1 AAAAATTTCTGTGTTTT
*
2948278 AAAAATTTCCGTGTTTT
1 AAAAATTTCTGTGTTTT
*
2948295 AAAAATTTTTCGTGTTTT
1 AAAAATTTCT-GTGTTTT
2948313 CAAAAA
1 -AAAAA
2948319 AATAATTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 24 0.67
18 7 0.19
19 5 0.14
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (17 bp):
AAAAATTTCTGTGTTTT
Found at i:2948345 original size:35 final size:36
Alignment explanation
Indices: 2948289--2948356 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
2948279 AAAATTTCCG
* * *
2948289 TGTTTTAAAAATTTTTCGTGTTTTCAAAAAAATAAT
1 TGTTTCAAAAATCTTTCGTGTTTTAAAAAAAATAAT
2948325 TGTTTCAAAAATCTTT-GTGTTTTAAAAAAAAT
1 TGTTTCAAAAATCTTTCGTGTTTTAAAAAAAAT
2948357 CGTATTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 15 0.52
36 14 0.48
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (36 bp):
TGTTTCAAAAATCTTTCGTGTTTTAAAAAAAATAAT
Found at i:2948352 original size:18 final size:17
Alignment explanation
Indices: 2948253--2948353 Score: 73
Period size: 18 Copynumber: 5.7 Consensus size: 17
2948243 AAATTTTTCA
2948253 TGTTTTCAAAAAATTTCTG
1 TGTTTT-AAAAAATTT-TG
*
2948272 TGTTTT-AAAAATTTCCG
1 TGTTTTAAAAAATTT-TG
*
2948289 TGTTTTAAAAATTTTTCG
1 TGTTTTAAAAAATTTT-G
**
2948307 TGTTTTCAAAAAAATAAT-
1 TGTTTT--AAAAAATTTTG
*
2948325 TG-TTTCAAAAATCTTTG
1 TGTTTTAAAAAAT-TTTG
2948342 TGTTTTAAAAAA
1 TGTTTTAAAAAA
2948354 AATCGTATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
15 6 0.09
16 1 0.02
17 21 0.32
18 24 0.37
19 6 0.09
20 7 0.11
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.47
Consensus pattern (17 bp):
TGTTTTAAAAAATTTTG
Found at i:2950048 original size:4 final size:4
Alignment explanation
Indices: 2950039--2950063 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2950029 CATCCATTGG
2950039 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
2950064 GCATGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:2954030 original size:1 final size:1
Alignment explanation
Indices: 2954024--2954104 Score: 63
Period size: 1 Copynumber: 81.0 Consensus size: 1
2954014 TGTTATGCCT
* * * * * * * * *
2954024 AAAAAAACAATAAAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAAAAACAAAAAAAGAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
2954089 AAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAA
2954105 TCAAGATGAA
Statistics
Matches: 58, Mismatches: 22, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.86, C:0.07, G:0.05, T:0.01
Consensus pattern (1 bp):
A
Found at i:2954047 original size:8 final size:8
Alignment explanation
Indices: 2954036--2954098 Score: 90
Period size: 8 Copynumber: 7.6 Consensus size: 8
2954026 AAAAACAATA
2954036 AAAAAAAC
1 AAAAAAAC
2954044 AAAAAAAC
1 AAAAAAAC
2954052 AAAAAAAC
1 AAAAAAAC
2954060 AAAAAAAC
1 AAAAAAAC
2954068 AAAAAAAAC
1 -AAAAAAAC
*
2954077 AAAAAAAG
1 AAAAAAAC
*
2954085 AAAGAAAAG
1 AAA-AAAAC
2954094 AAAAA
1 AAAAA
2954099 GAAAAATCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
8 36 0.69
9 16 0.31
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2954047 original size:9 final size:9
Alignment explanation
Indices: 2954024--2954083 Score: 79
Period size: 8 Copynumber: 6.7 Consensus size: 9
2954014 TGTTATGCCT
2954024 AAAAAAACA
1 AAAAAAACA
*
2954033 ATAAAAAAAA
1 A-AAAAAACA
2954043 CAAAAAAAC-
1 -AAAAAAACA
2954052 AAAAAAAC-
1 AAAAAAACA
2954060 AAAAAAACA
1 AAAAAAACA
2954069 AAAAAAACA
1 AAAAAAACA
2954078 AAAAAA
1 AAAAAA
2954084 GAAAGAAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
8 16 0.35
9 16 0.35
10 13 0.28
11 1 0.02
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAACA
Found at i:2954055 original size:17 final size:17
Alignment explanation
Indices: 2954035--2954098 Score: 94
Period size: 17 Copynumber: 3.8 Consensus size: 17
2954025 AAAAAACAAT
2954035 AAAAAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAC
2954052 -AAAAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAC
*
2954068 AAAAAAAACAAAAAAAG
1 AAAAAAAACAAAAAAAC
* *
2954085 AAAGAAAAGAAAAA
1 AAAAAAAACAAAAA
2954099 GAAAAATCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
16 16 0.37
17 27 0.63
ACGTcount: A:0.88, C:0.08, G:0.05, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAC
Found at i:2955169 original size:75 final size:75
Alignment explanation
Indices: 2954973--2955626 Score: 849
Period size: 76 Copynumber: 8.6 Consensus size: 75
2954963 CAAATTTTTT
* * *
2954973 ATTTGCTGTTTTT-TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA-CACG
1 ATTT-CTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATC-C-
2955036 TCGAGGTATTTTTCA
63 T-GAGGTA-TTTTCA
*** * * *
2955051 ATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTGATCCTAA
1 ATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATCCTGA
2955116 GGTATTTTTCA
66 GGTA-TTTTCA
* * * *
2955127 TTTTCTGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAACCTCAGGTCATCCTGA
1 ATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATCCTGA
2955191 GGTATTTTCA
66 GGTATTTTCA
*
2955201 ATTTCTGTTTTTCAAAAAAATCAACTCATAATACGAGAAGTGAGTTGAGCCTCGGGTCATCCTGA
1 ATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATCCTGA
2955266 GGTATTTTCA
66 GGTATTTTCA
* * *
2955276 ATTTATATTTTTCAAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGAGTCATCCTG
1 ATTTCTGTTTTTC-AAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATCCTG
2955341 AGGTATTTTCA
65 AGGTATTTTCA
* * *
2955352 ATTTATGTTTTTCAAAAAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCATCCTG
1 ATTTCTGTTTTTC-AAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATCCTG
2955417 AGGTATTTTCA
65 AGGTATTTTCA
* * *
2955428 ATTTATATTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA-CGCTG
1 ATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATC-CTG
*
2955492 AGGTATTTTTA
65 AGGTATTTTCA
*
2955503 ATTTCTGTTTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA-CAC
1 ATTTCTG--TTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATC-C
2955566 ATCGAGGTATTTTCA
63 -T-GAGGTATTTTCA
* * **
2955581 ATATCTATTTTTC--AAAGGTCAACTCATAAT-CTGAGAAGTGAGTTGA
1 ATTTCTGTTTTTCAAAAAAATCAACTCATAATGC-GAGAAGTGAGTTGA
2955627 ACTTTGGATC
Statistics
Matches: 526, Mismatches: 40, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
74 20 0.04
75 205 0.39
76 220 0.42
77 16 0.03
78 64 0.12
79 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (75 bp):
ATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATCCTGA
GGTATTTTCA
Found at i:2955362 original size:151 final size:149
Alignment explanation
Indices: 2954981--2955626 Score: 847
Period size: 151 Copynumber: 4.3 Consensus size: 149
2954971 TTATTTGCTG
* * *
2954981 TTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGTCGAGGTATT
1 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCACAC-T-GAGGTA-T
*** * *
2955046 TTTCAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTGAT
63 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCAT
* * * *
2955111 CCTAAGGTATTTTTCATTTTCTG
128 CCTGAGGTA-TTTTCAATTTATA
*
2955134 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAACCTC-AGGTCATC-CTGAGGTATT
1 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGA-GTCA-CACTGAGGTATT
*
2955197 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATACGAGAAGTGAGTTGAGCCTCGGGTCATC
64 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATC
2955262 CTGAGGTATTTTCAATTTATA
129 CTGAGGTATTTTCAATTTATA
*
2955283 TTTTTCAAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGAGTCATC-CTGAGGTAT
1 TTTTTC--AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCA-CACTGAGGTAT
* * *
2955347 TTTCAATTTATGTTTTTCAAAAAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCA
63 TTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCA
2955412 TCCTGAGGTATTTTCAATTTATA
127 TCCTGAGGTATTTTCAATTTATA
* *
2955435 TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 TTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCACACTGAGGTATTT
* *
2955500 TTAATTTCTGTTTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA-
65 TCAATTTCTG--TTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCAT
* *
2955563 CACATCGAGGTATTTTCAATATCTA
128 C-C-T-GAGGTATTTTCAATTTATA
** *
2955588 TTTTTC-AAAGGTCAACTCATAAT-CTGAGAAGTGAGTTGA
1 TTTTTCAAAAAATCAACTCATAATGC-GAGAGGTGAGTTGA
2955627 ACTTTGGATC
Statistics
Matches: 448, Mismatches: 32, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
149 16 0.04
150 71 0.16
151 209 0.47
152 75 0.17
153 76 0.17
154 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (149 bp):
TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCACACTGAGGTATTTT
CAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTCATCCT
GAGGTATTTTCAATTTATA
Found at i:2955977 original size:30 final size:31
Alignment explanation
Indices: 2955937--2956100 Score: 155
Period size: 30 Copynumber: 5.5 Consensus size: 31
2955927 GGCAAAAAAA
* **
2955937 TAAAAATTACATTTTAACCCCTGTACTTTT-
1 TAAAATTTACATTTTAACCCCTAAACTTTTC
* *
2955967 TGAAATTTACATTTTAA-CCTTAAACTTTTC
1 TAAAATTTACATTTTAACCCCTAAACTTTTC
*
2955997 TAAAATTTACATTTTGACCCC-AAACTTTTC
1 TAAAATTTACATTTTAACCCCTAAACTTTTC
* * *
2956027 TAAAA-TTACATTTCAA-CCCTTAACCTTTC
1 TAAAATTTACATTTTAACCCCTAAACTTTTC
*
2956056 TCAAAA-TTACACTTTAACCCCTAAAC-TTTC
1 T-AAAATTTACATTTTAACCCCTAAACTTTTC
*
2956086 -AATAAATTACATTTT
1 TAA-AATTTACATTTT
2956101 GGCCCATATT
Statistics
Matches: 111, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
28 5 0.05
29 28 0.25
30 69 0.62
31 9 0.08
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (31 bp):
TAAAATTTACATTTTAACCCCTAAACTTTTC
Found at i:2956003 original size:59 final size:60
Alignment explanation
Indices: 2955939--2956099 Score: 179
Period size: 60 Copynumber: 2.7 Consensus size: 60
2955929 CAAAAAAATA
** * * *
2955939 AAAATTACATTTTAACCCCTGTACTTTT-TGAAATTTACATTTTAA-CCTTAAACTTT-TC
1 AAAATTACATTTTAACCCCTAAACTTTTCT-AAAATTACATTTCAACCCTTAACCTTTCTC
*
2955997 TAAAATTTACATTTTGACCCC-AAACTTTTCTAAAATTACATTTCAACCCTTAACCTTTCTC
1 -AAAA-TTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTCAACCCTTAACCTTTCTC
* *
2956058 AAAATTACACTTTAACCCCTAAAC-TTTCAATAAATTACATTT
1 AAAATTACATTTTAACCCCTAAACTTTTCTA-AAATTACATTT
2956100 TGGCCCATAT
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
59 41 0.47
60 44 0.51
61 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.40
Consensus pattern (60 bp):
AAAATTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTCAACCCTTAACCTTTCTC
Found at i:2956007 original size:60 final size:59
Alignment explanation
Indices: 2955939--2956099 Score: 177
Period size: 59 Copynumber: 2.7 Consensus size: 59
2955929 CAAAAAAATA
** * * *
2955939 AAAATTACATTTTAACCCCTGTACTTTT-TGAAATTTACATTTTAA-CCTTAAACTTTTCT
1 AAAATTACATTTTAACCCCTAAACTTTTCT-AAAATTACATTTCAACCCTT-AACCTTTCT
*
2955998 AAAATTTACATTTTGACCCC-AAACTTTTCTAAAATTACATTTCAACCCTTAACCTTTCT
1 AAAA-TTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTCAACCCTTAACCTTTCT
* *
2956057 CAAAATTACACTTTAACCCCTAAAC-TTTCAATAAATTACATTT
1 -AAAATTACATTTTAACCCCTAAACTTTTCTA-AAATTACATTT
2956100 TGGCCCATAT
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
59 49 0.56
60 38 0.44
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.40
Consensus pattern (59 bp):
AAAATTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTCAACCCTTAACCTTTCT
Found at i:2957431 original size:24 final size:26
Alignment explanation
Indices: 2957389--2957438 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
2957379 ATATGAGCCT
2957389 AAAAATTTGTCCAAACCCG-GCCCGA
1 AAAAATTTGTCCAAACCCGAGCCCGA
* *
2957414 AAAAATTTG-CTAAGCCCGAGCCCGA
1 AAAAATTTGTCCAAACCCGAGCCCGA
2957439 CCCGGCTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (26 bp):
AAAAATTTGTCCAAACCCGAGCCCGA
Found at i:2958709 original size:20 final size:20
Alignment explanation
Indices: 2958684--2958724 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2958674 ATAAAGGTCT
2958684 CTAATGCATATAATGCGATG
1 CTAATGCATATAATGCGATG
*
2958704 CTAATGCATATGATGCGATG
1 CTAATGCATATAATGCGATG
2958724 C
1 C
2958725 ATGAGATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (20 bp):
CTAATGCATATAATGCGATG
Found at i:2961266 original size:135 final size:132
Alignment explanation
Indices: 2961022--2961273 Score: 407
Period size: 135 Copynumber: 1.9 Consensus size: 132
2961012 TATGCTCAGA
* * *
2961022 CCTGTCAATTGAGTGGATCGGGTTAGTTTTGGGTCATATCATTTCTGTTCCAAAATTTGGAGTCC
1 CCTGTCAATTGAGTGGATCGGGTTAGTTTTGGGTCATATCACTTCTGTTCAAAAATTTCGAGTCC
* *
2961087 TTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTCATTTTGTGTTCAGGTCA
66 TTTTGGGTTGTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTTTGTGTTCAGGTCA
2961152 TT
131 TT
2961154 CCTGTCAATTGAGCTGG-TCGGGTTAGTTTTGGGTCATATCACTTCTGTTTCAAAAAGATTTCGA
1 CCTGTCAATTGAG-TGGATCGGGTTAGTTTTGGGTCATATCACTTCTG-TTC-AAAA-ATTTCGA
*
2961218 GTCCTTTTGGGTTGTGGATTATTTTGGATTCAAGTTACTTCAGGTCTGGGTAATTT
62 GTCCTTTTGGGTTGTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTT
2961274 CGGATTCAAG
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
132 42 0.38
133 6 0.05
134 3 0.03
135 59 0.54
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.43
Consensus pattern (132 bp):
CCTGTCAATTGAGTGGATCGGGTTAGTTTTGGGTCATATCACTTCTGTTCAAAAATTTCGAGTCC
TTTTGGGTTGTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTTTGTGTTCAGGTCA
TT
Found at i:2983646 original size:132 final size:134
Alignment explanation
Indices: 2983460--2983727 Score: 434
Period size: 135 Copynumber: 2.0 Consensus size: 134
2983450 TATGCTCAGA
* *
2983460 CCTGTCAATTGAGTGGATCGGGTTAGTTTTGGGTCATATCATTTCTGTTCC-AAA-ATTTGGAGT
1 CCTGTCAATTGAGTGGATCGGGTTAGTTTTGGGTCATATCACTTCTGTTCCAAAAGATTTCGAGT
* *
2983523 CCTTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTTTGTATTCAAGT
66 CCTTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTTCGGATTCAAGT
2983588 CATT
131 CATT
*
2983592 CCTGTCAATTGAGCTGG-TCGGGTTAGTTTTGGGTCATATCACTTCTGTTTCAAAAAGATTTCGA
1 CCTGTCAATTGAG-TGGATCGGGTTAGTTTTGGGTCATATCACTTCTG-TTCCAAAAGATTTCGA
*
2983656 GTCCTTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGGTCTGGGTAATTTCGGATTCAA
64 GTCCTTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTTCGGATTCAA
*
2983721 GTTATT
129 GTCATT
2983727 C
1 C
2983728 TAGGTTCAGA
Statistics
Matches: 125, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
132 42 0.34
133 6 0.05
134 3 0.02
135 74 0.59
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (134 bp):
CCTGTCAATTGAGTGGATCGGGTTAGTTTTGGGTCATATCACTTCTGTTCCAAAAGATTTCGAGT
CCTTTTGGGTTTTGGATTATTTTGGATTCAAGTTACTTCAGATCTGGGTAATTTCGGATTCAAGT
CATT
Found at i:2984821 original size:24 final size:21
Alignment explanation
Indices: 2984794--2984838 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
2984784 AAAATTCGAC
2984794 AAATTATATATTATATTAAAAAAT
1 AAATTA-ATATT-T-TTAAAAAAT
*
2984818 AAATTAATCTTTTTAAAAAAT
1 AAATTAATATTTTTAAAAAAT
2984839 TTTGATCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 1 0.05
23 4 0.20
24 6 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTAATATTTTTAAAAAAT
Found at i:2988164 original size:70 final size:70
Alignment explanation
Indices: 2988074--2988212 Score: 188
Period size: 70 Copynumber: 2.0 Consensus size: 70
2988064 ACTCGGCTCC
* * * * * *
2988074 AAGTAACATCGTAATTAACAATTGTCTATGCATACTCGGACACGGGGAATGAATATTGTACCCAA
1 AAGTAACATCGCAACTAACAATTGTCAATACATACTCAGACACGGGGAATGAATATTGCACCCAA
2988139 CAGGA
66 CAGGA
* * * *
2988144 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGCACCCGA
1 AAGTAACATCGCAACTAACAATTGTCAATACATACTCAGACACGGGGAATGAATATTGCACCCAA
2988209 CAGG
66 CAGG
2988213 CTGACACTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (70 bp):
AAGTAACATCGCAACTAACAATTGTCAATACATACTCAGACACGGGGAATGAATATTGCACCCAA
CAGGA
Found at i:2988298 original size:90 final size:90
Alignment explanation
Indices: 2988144--2988495 Score: 456
Period size: 90 Copynumber: 3.9 Consensus size: 90
2988134 CCCAACAGGA
*
2988144 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGCACCCGA
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGTACCCGA
*
2988209 CAGGCTGACACTAATACACGACTCC
66 CAGGCCGACACTAATACACGACTCC
* * * *
2988234 GAGTAACATTGCAACTAACAATCGTCAATGCATATTCAGACATGGGGAATGCATATTGTACCCGA
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGTACCCGA
* * *
2988299 CAGGTCGACACTAACACTCGACTCC
66 CAGGCCGACACTAATACACGACTCC
* * * * *
2988324 AAGTAGCATTGCAGCTAACAATTGTCAATACATACTC-GATACGGGGAATGCATATTAT-CCCTG
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGTACCC-G
2988387 ACAGGCCGACACTAACACTAACACTAGACTCC
65 ACAGGCCGACACT-A-A-T-ACAC--GACTCC
* * * * *
2988419 TAGTAACATTGCAACTAACAATTTTCAATACACATTCGGACATGGGGAATGCATATTGTACCCGA
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGTACCCGA
2988484 CAGGCCGACACT
66 CAGGCCGACACT
2988496 CAACTCGGTG
Statistics
Matches: 223, Mismatches: 30, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
88 3 0.01
89 31 0.14
90 113 0.51
91 1 0.00
93 3 0.01
95 37 0.17
96 32 0.14
97 3 0.01
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (90 bp):
AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGTACCCGA
CAGGCCGACACTAATACACGACTCC
Found at i:2988463 original size:185 final size:179
Alignment explanation
Indices: 2988144--2988495 Score: 501
Period size: 185 Copynumber: 1.9 Consensus size: 179
2988134 CCCAACAGGA
*
2988144 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACATGGGGAATGCATATTGCACCCGA
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACACGGGGAATGCATATT-CACCCGA
* * *
2988209 CAGGCTGACACTAATACACGACTCCGAGTAACATTGCAACTAACAATCGTCAATGCATATTCAGA
65 CAGGCCGACACTAATACACGACTCCGAGTAACATTGCAACTAACAATCGTCAATACACATTCAGA
*
2988274 CATGGGGAATGCATATTGTACCCGACAGGTCGACACTAACACTCGACTCC
130 CATGGGGAATGCATATTGTACCCGACAGGCCGACACTAACACTCGACTCC
* * *
2988324 AAGTAGCATTGCAGCTAACAATTGTCAATACATACTC-GATACGGGGAATGCATATT-ATCCCTG
1 AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACACGGGGAATGCATATTCA-CCC-G
* **
2988387 ACAGGCCGACACTAACACTAACACTAGACTCCTAGTAACATTGCAACTAACAATTTTCAATACAC
64 ACAGGCCGACACT-A-A-T-ACAC--GACTCCGAGTAACATTGCAACTAACAATCGTCAATACAC
*
2988452 ATTCGGACATGGGGAATGCATATTGTACCCGACAGGCCGACACT
123 ATTCAGACATGGGGAATGCATATTGTACCCGACAGGCCGACACT
2988496 CAACTCGGTG
Statistics
Matches: 152, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
177 1 0.01
178 3 0.02
179 30 0.20
180 36 0.24
181 1 0.01
182 1 0.01
183 4 0.03
185 76 0.50
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (179 bp):
AAGTAACATTGCAACTAACAATTGTCAATACATACTCAGACACGGGGAATGCATATTCACCCGAC
AGGCCGACACTAATACACGACTCCGAGTAACATTGCAACTAACAATCGTCAATACACATTCAGAC
ATGGGGAATGCATATTGTACCCGACAGGCCGACACTAACACTCGACTCC
Done.