Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold53
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: 4419549
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 41486 characters in sequence are not A, C, G, or T
File 9 of 28
Found at i:1389380 original size:13 final size:13
Alignment explanation
Indices: 1389362--1389387 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1389352 TATAGCAAGT
1389362 ATGTATCGATACA
1 ATGTATCGATACA
1389375 ATGTATCGATACA
1 ATGTATCGATACA
1389388 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1390604 original size:13 final size:13
Alignment explanation
Indices: 1390586--1390612 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1390576 CAATTTCGCA
1390586 TGTATCGATACAT
1 TGTATCGATACAT
1390599 TGTATCGATACAT
1 TGTATCGATACAT
1390612 T
1 T
1390613 TCATTTAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1390682 original size:19 final size:19
Alignment explanation
Indices: 1390642--1390694 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
1390632 CCAGTTTCAC
* *
1390642 GTATCGATACAATTGAGTAT
1 GTATTGATACAA-TGAGCAT
1390662 GTATTGATACAATGAGCAT
1 GTATTGATACAATGAGCAT
1390681 GTATTGATACAATG
1 GTATTGATACAATG
1390695 TATCGATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (19 bp):
GTATTGATACAATGAGCAT
Found at i:1399100 original size:35 final size:35
Alignment explanation
Indices: 1399025--1399145 Score: 162
Period size: 35 Copynumber: 3.6 Consensus size: 35
1399015 CTATCTTTTG
*
1399025 AAGGCTAAGATAGAA-C-C-TCCCTATC-ATTTCA
1 AAGGCTAAGATAGAACCTCTTCCCTATCTTTTTCA
*
1399056 CAA-GTTAAGATAGAACCTCTTCCCTATCTTTTTCA
1 -AAGGCTAAGATAGAACCTCTTCCCTATCTTTTTCA
* *
1399091 AAGGCTAAGATAGGACCTCTACCCTATCTTTTTCA
1 AAGGCTAAGATAGAACCTCTTCCCTATCTTTTTCA
1399126 AAGGCTAAGATAGAACCTCT
1 AAGGCTAAGATAGAACCTCT
1399146 CAATCACTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
31 11 0.14
32 3 0.04
33 1 0.01
34 10 0.13
35 53 0.68
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (35 bp):
AAGGCTAAGATAGAACCTCTTCCCTATCTTTTTCA
Found at i:1399722 original size:33 final size:33
Alignment explanation
Indices: 1399679--1399741 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1399669 TAATTCATGG
1399679 TGTATCAATACAAAGCAATTTGTATCGATATAA
1 TGTATCAATACAAAGCAATTTGTATCGATATAA
* ** *
1399712 TGTATGAATACTTAGTAATTTGTATCGATA
1 TGTATCAATACAAAGCAATTTGTATCGATA
1399742 CATCTAGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCAATACAAAGCAATTTGTATCGATATAA
Found at i:1401709 original size:21 final size:21
Alignment explanation
Indices: 1401679--1401733 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1401669 CATAAATAAA
*
1401679 TGTACCGATACATTTATT-ATT
1 TGTATCGATACATTTATTCA-T
*
1401700 TGTATTGATACA-TTATTCAT
1 TGTATCGATACATTTATTCAT
1401720 TGTATCGATACATT
1 TGTATCGATACATT
1401734 CTGGAGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (21 bp):
TGTATCGATACATTTATTCAT
Found at i:1405712 original size:28 final size:28
Alignment explanation
Indices: 1405679--1405750 Score: 144
Period size: 28 Copynumber: 2.6 Consensus size: 28
1405669 AATAAAGCCG
1405679 GGGTTGGAGTATCCCCTTGAGAATAATA
1 GGGTTGGAGTATCCCCTTGAGAATAATA
1405707 GGGTTGGAGTATCCCCTTGAGAATAATA
1 GGGTTGGAGTATCCCCTTGAGAATAATA
1405735 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1405751 AATGGTGGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTTGAGAATAATA
Found at i:1405953 original size:79 final size:78
Alignment explanation
Indices: 1405707--1406097 Score: 356
Period size: 79 Copynumber: 5.0 Consensus size: 78
1405697 GAGAATAATA
** * * * * * * *
1405707 GGGTTGGAGTATCCCCTTGAGAATAATAGGGTTGGAGTATCCCCAATGGTGGAAAA-CTGATATT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTAT-CCCGATGGTGAAAAATC-AATGTT
*
1405771 TTAGAAATAAAATCA
64 TTAGAAATAAAATCG
* * * * * *
1405786 GGGTCGCAATATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCATGATGAAAAATCAATGTTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCCGATGGTGAAAAATCAATGTTTT
* *
1405851 AAAAATAAAATTG
66 AGAAATAAAATCG
* * * ***
1405864 GGGTTAGAGTATCCCCTCAAAAATTAC-GAGGTTAGAGTATCCCGGATGGTGAAAATTTGGTGTT
1 GGGTTGGAGTATCCCCTCAAAAATAACAG-GGTTAGAGTATCCC-GATGGTGAAAAATCAATGTT
1405928 TTAGAAATAAAA-CTG
64 TTAGAAATAAAATC-G
** * ** * *
1405943 GGGTTGGAGTATCCTTTCGAAAATAATGGGGTTAGAGTATCCCCGATGGTGGAAAATCAGTGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTAT-CCCGATGGTGAAAAATCAATGTTT
1406008 TAGAAATAAAATCG
65 TAGAAATAAAATCG
* * * * * * *
1406022 AGGTTGGAGAATCCTCTCAGAAATAACAGGGTTGGAGTATCCCTGATAGTAAAAAATCAATGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCC-GATGGTGAAAAATCAATGTTT
1406087 TAGAAATAAAA
65 TAGAAATAAAA
1406098 CCAAGGTGAA
Statistics
Matches: 253, Mismatches: 51, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
77 1 0.00
78 66 0.26
79 181 0.72
80 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTAGAGTATCCCGATGGTGAAAAATCAATGTTTT
AGAAATAAAATCG
Found at i:1408491 original size:22 final size:22
Alignment explanation
Indices: 1408463--1408514 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
1408453 GGAAGCTGCT
1408463 GGCTGGAATCTTCGATTGTTGG
1 GGCTGGAATCTTCGATTGTTGG
1408485 GGCTGGAATCTTCGATTGTTGG
1 GGCTGGAATCTTCGATTGTTGG
*
1408507 AGCTGGAA
1 GGCTGGAA
1408515 GCTGCTGCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.13, G:0.37, T:0.33
Consensus pattern (22 bp):
GGCTGGAATCTTCGATTGTTGG
Found at i:1408598 original size:35 final size:35
Alignment explanation
Indices: 1408547--1408622 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
1408537 TGTTGGAATG
* * *
1408547 GAAGTTGATGGAGCTGCGGCCGATGTTTGTGGCTA
1 GAAGCTGATGGAGCTGCGACCGATGTTCGTGGCTA
* * *
1408582 TAAGCTGATGGAGCTGCTACCGGTGTTCGTGGCTA
1 GAAGCTGATGGAGCTGCGACCGATGTTCGTGGCTA
1408617 GAAGCT
1 GAAGCT
1408623 ATCGTTCGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.18, C:0.17, G:0.37, T:0.28
Consensus pattern (35 bp):
GAAGCTGATGGAGCTGCGACCGATGTTCGTGGCTA
Found at i:1409420 original size:21 final size:23
Alignment explanation
Indices: 1409374--1409425 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
1409364 CGTCCCCGAC
*
1409374 TTTTTAT-TTATTTATTTATTTA
1 TTTTTATATTATTTATTTATTGA
1409396 -TTTTATATT-TTTATTT-TTGA
1 TTTTTATATTATTTATTTATTGA
1409416 TTTTTATATT
1 TTTTTATATT
1409426 GTCTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.11
21 22 0.81
22 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTTATATTATTTATTTATTGA
Found at i:1419499 original size:19 final size:19
Alignment explanation
Indices: 1419475--1419542 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1419465 AATTCAACAA
1419475 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1419494 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1419509 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1419526 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1419543 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1419514 original size:13 final size:13
Alignment explanation
Indices: 1419496--1419520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1419486 ACATAAGTTT
1419496 TGTATCGATACAA
1 TGTATCGATACAA
1419509 TGTATCGATACA
1 TGTATCGATACA
1419521 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1419518 original size:32 final size:32
Alignment explanation
Indices: 1419477--1419539 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1419467 TTCAACAATT
*
1419477 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1419509 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1419540 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1419600 original size:13 final size:13
Alignment explanation
Indices: 1419582--1419607 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1419572 CATTTTTCTG
1419582 TGTATCGATACAT
1 TGTATCGATACAT
1419595 TGTATCGATACAT
1 TGTATCGATACAT
1419608 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1419604 original size:33 final size:33
Alignment explanation
Indices: 1419562--1419628 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1419552 GCCAAGGAAA
***
1419562 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1419595 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1419628 T
1 T
1419629 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1421075 original size:474 final size:474
Alignment explanation
Indices: 1420171--1421610 Score: 2727
Period size: 474 Copynumber: 3.0 Consensus size: 474
1420161 TTCCCGTAGC
*
1420171 TCCAAAAGCCACCACCAAAAACCCTCCAAAAACTCCATATTCCTCACACTTTCACCCAAAAATAG
1 TCCAAAAGCCACCACC-AAAACCCTCCAAAAACTCCATATTCCTCACACTTTCACCCAAAAACAG
1420236 CTCTTCTCTCAACCATACTACCCAAAAGCTACATCCTTTCATCCTTTTCTTGCTAAATAATAGCA
65 CTCTTCTCTCAACCATACTACCCAAAAGCTACATCCTTTCATCCTTTTCTTGCTAAATAATAGCA
*
1420301 AAGAGAGGGAGAAAACTAGGCCAACAACCCTTATTCCGGGAAACAAGGAAAGTTCAAGCCTTTTG
130 AAGAGAGGGAGAAAACTAAGCCAACAACCCTTATTCCGGGAAACAAGGAAAGTTCAAGCCTTTTG
1420366 GTATATTCTCTCTACCTTGATCTTTTGGTTTCTGTTTTGGACATTTATGACATTTTAGAAGTCCA
195 GTATATTCTCTCTACCTTGATCTTTTGGTTTCTGTTTTGGACATTTATGACATTTTAGAAGTCCA
1420431 TTTCTATGCTCATAAACACCTTAGGACTCCCATGCATTCTTGTGGTAGTTTAGGACCTTTTTTAT
260 TTTCTATGCTCATAAACACCTTAGGACTCCCATGCATTCTTGTGGTAGTTTAGGACCTTTTTTAT
1420496 TCCTTGGCTTTCTTTGCATTTTCATCACCGTAACAGCCCCTGTTTTTGCATCCTTTGTTCATCCC
325 TCCTTGGCTTTCTTTGCATTTTCATCACCGTAACAGCCCCTGTTTTTGCATCCTTTGTTCATCCC
1420561 TCCCATATTCACATCTTTATCTCATATTAAATGTCATTTCAACACATCTTGAGCATGTTCATGCA
390 TCCCATATTCACATCTTTATCTCATATTAAATGTCATTTCAACACATCTTGAGCATGTTCATGCA
1420626 TGATTAATAGCTTGATAGGT
455 TGATTAATAGCTTGATAGGT
1420646 TCCAAAAGCCACCACCAAAACCCTCCAAAAACTCCATATTCCTCACACTTTCACCCAAAAACAGC
1 TCCAAAAGCCACCACCAAAACCCTCCAAAAACTCCATATTCCTCACACTTTCACCCAAAAACAGC
1420711 TCTTCTCTCAACCATACTACCCAAAAGCTACATCCTTTCATCCTTTTCTTGCTAAATAATAGCAA
66 TCTTCTCTCAACCATACTACCCAAAAGCTACATCCTTTCATCCTTTTCTTGCTAAATAATAGCAA
1420776 AGAGAGGGAGAAAACTAAGCCAACAACCCTTATTCCGGGAAACAAGGAAAGTTCAAGCCTTTTGG
131 AGAGAGGGAGAAAACTAAGCCAACAACCCTTATTCCGGGAAACAAGGAAAGTTCAAGCCTTTTGG
1420841 TATATTCTCTCTACCTTGATCTTTTGGTTTCTGTTTTGGACATTTATGACATTTTAGAAGTCCAT
196 TATATTCTCTCTACCTTGATCTTTTGGTTTCTGTTTTGGACATTTATGACATTTTAGAAGTCCAT
1420906 TTCTATGCTCATAAACACCTTAGGACTCCCATGCATTCTTGTGGTAGTTTAGGACCTTTTTTATT
261 TTCTATGCTCATAAACACCTTAGGACTCCCATGCATTCTTGTGGTAGTTTAGGACCTTTTTTATT
1420971 CCTTGGCTTTCTTTGCATTTTCATCACCGTAACAGCCCCTGTTTTTGCATCCTTTGTTCATCCCT
326 CCTTGGCTTTCTTTGCATTTTCATCACCGTAACAGCCCCTGTTTTTGCATCCTTTGTTCATCCCT
1421036 CCCATATTCACATCTTTATCTCATATTAAATGTCATTTCAACACATCTTGAGCATGTTCATGCAT
391 CCCATATTCACATCTTTATCTCATATTAAATGTCATTTCAACACATCTTGAGCATGTTCATGCAT
1421101 GATTAATAGCTTGATAGGT
456 GATTAATAGCTTGATAGGT
1421120 TCCAAAAGCCACCACCAAAACCCTCCAAAAACTCCATATTCCTCACACTTTCACCCAAAAACAGC
1 TCCAAAAGCCACCACCAAAACCCTCCAAAAACTCCATATTCCTCACACTTTCACCCAAAAACAGC
1421185 TCTTCTCTCAACCATACTACCCAAAAGCTACATCCTTTCATCCTTTTCTTGCTAAATAATAGCAA
66 TCTTCTCTCAACCATACTACCCAAAAGCTACATCCTTTCATCCTTTTCTTGCTAAATAATAGCAA
1421250 AGAGAGGGAGAAAACTAAGCCAACAACCCTTATTCCGGGAAACAAGGAAAGTTCAAGCCTTTTGG
131 AGAGAGGGAGAAAACTAAGCCAACAACCCTTATTCCGGGAAACAAGGAAAGTTCAAGCCTTTTGG
1421315 TATATTCTCTCTACCTTGATCTTTTGGTTTCTGTTTTGGACATTTATGACATTTTAGAAGTCCAT
196 TATATTCTCTCTACCTTGATCTTTTGGTTTCTGTTTTGGACATTTATGACATTTTAGAAGTCCAT
1421380 TTCTATGCTCATAAACACCTTAGGACTCCCATGCATTCTTGTGGTTTTTGTTTGTGGTAGTTTAG
261 TTCTATGCTCATAAACACCTTAGGACTCCCATGCATTC-------------TTGTGGTAGTTTAG
*
1421445 GACCTTTTTTATTCCTTGGCTTTCTTTGCATTTTCATCACCATAACAGCCCCTGTTTTTGCATCC
313 GACCTTTTTTATTCCTTGGCTTTCTTTGCATTTTCATCACCGTAACAGCCCCTGTTTTTGCATCC
1421510 TTTGTTCATCCCTCCCATATTCACATCTTTATCTCATATTAAATGTCATTTCAACACATCTTGAG
378 TTTGTTCATCCCTCCCATATTCACATCTTTATCTCATATTAAATGTCATTTCAACACATCTTGAG
1421575 CATGTTCATGCATGATTAATAGCTTGATAGGT
443 CATGTTCATGCATGATTAATAGCTTGATAGGT
1421607 TCCA
1 TCCA
1421611 TGAAATAAAA
Statistics
Matches: 949, Mismatches: 3, Indels: 14
0.98 0.00 0.01
Matches are distributed among these distances:
474 754 0.79
475 16 0.02
487 179 0.19
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (474 bp):
TCCAAAAGCCACCACCAAAACCCTCCAAAAACTCCATATTCCTCACACTTTCACCCAAAAACAGC
TCTTCTCTCAACCATACTACCCAAAAGCTACATCCTTTCATCCTTTTCTTGCTAAATAATAGCAA
AGAGAGGGAGAAAACTAAGCCAACAACCCTTATTCCGGGAAACAAGGAAAGTTCAAGCCTTTTGG
TATATTCTCTCTACCTTGATCTTTTGGTTTCTGTTTTGGACATTTATGACATTTTAGAAGTCCAT
TTCTATGCTCATAAACACCTTAGGACTCCCATGCATTCTTGTGGTAGTTTAGGACCTTTTTTATT
CCTTGGCTTTCTTTGCATTTTCATCACCGTAACAGCCCCTGTTTTTGCATCCTTTGTTCATCCCT
CCCATATTCACATCTTTATCTCATATTAAATGTCATTTCAACACATCTTGAGCATGTTCATGCAT
GATTAATAGCTTGATAGGT
Found at i:1423064 original size:28 final size:27
Alignment explanation
Indices: 1422997--1423065 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
1422987 CTTCACAATC
* **
1422997 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
1423024 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
1423052 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1423066 TCCGACTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.20
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:1423207 original size:52 final size:51
Alignment explanation
Indices: 1422885--1423216 Score: 235
Period size: 51 Copynumber: 6.3 Consensus size: 51
1422875 CTCAATTCTC
* *
1422885 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTT
* *
1422935 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTTC--AAAACACCAATTT-TT
* * * ** * * *
1422990 CACAATCGGGGACACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTTC---AAAACACCAA-----TT-TTT
* * * ***
1423048 C-CGA--GGGGATACTCCAACTCCGACTTTATTTTCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTT
* * * *
1423096 CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTT
** * * *
1423147 CTTTAATCGGGGATACTCCAACACCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACCAATTTTT
*
1423200 CACAATCGAGGATACTC
1 CACAATCGGGGATACTC
1423217 AAACCTCGTT
Statistics
Matches: 215, Mismatches: 48, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
50 1 0.00
51 69 0.32
52 49 0.23
53 30 0.14
54 26 0.12
55 19 0.09
57 8 0.04
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTT
Found at i:1423252 original size:211 final size:211
Alignment explanation
Indices: 1422888--1423276 Score: 611
Period size: 211 Copynumber: 1.8 Consensus size: 211
1422878 AATTCTCCAC
* * *
1422888 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* * *
1422953 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTTA
66 CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCAAACCCCGTTA
* * *
1423018 ATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGACTTTATTTTCAA
131 ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACTCCGACTTTATTTTCAA
1423083 AATATTGATTTTTCAT
196 AATATTGATTTTTCAT
* *
1423099 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* * *
1423164 CCAACACCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCAAACCTCGTT
65 CCAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCAAACCCCGTT
*
1423227 ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAAC
130 A-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAAC
1423277 CCCGTTATTA
Statistics
Matches: 161, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
210 26 0.16
211 100 0.62
212 35 0.22
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (211 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCAAACCCCGTTA
ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACTCCGACTTTATTTTCAA
AATATTGATTTTTCAT
Found at i:1426400 original size:46 final size:46
Alignment explanation
Indices: 1426331--1426479 Score: 246
Period size: 46 Copynumber: 3.2 Consensus size: 46
1426321 GGGTCCCTCT
* *
1426331 AAGGTTATGACAGAAGGTGATGCGTTGGGCATCATCAAGAGGCTCA
1 AAGGTTGTGATAGAAGGTGATGCGTTGGGCATCATCAAGAGGCTCA
1426377 AAGGTTGTGATAG-AGGATGATGCGTTGGGCATCATCAAGAGGCTCA
1 AAGGTTGTGATAGAAGG-TGATGCGTTGGGCATCATCAAGAGGCTCA
*
1426423 AAGGTTGTGATAGAAGGTGATGCGTTAGGCATCATCAAGAGGCTCA
1 AAGGTTGTGATAGAAGGTGATGCGTTGGGCATCATCAAGAGGCTCA
*
1426469 AAGGTTCTGAT
1 AAGGTTGTGAT
1426480 CCGGATCTCT
Statistics
Matches: 97, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
45 3 0.03
46 91 0.94
47 3 0.03
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.24
Consensus pattern (46 bp):
AAGGTTGTGATAGAAGGTGATGCGTTGGGCATCATCAAGAGGCTCA
Found at i:1433338 original size:13 final size:14
Alignment explanation
Indices: 1433307--1433339 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1433297 TTGATTATTT
1433307 TAAATTCAAACACA
1 TAAATTCAAACACA
*
1433321 TAAATTCAAA-AGA
1 TAAATTCAAACACA
1433334 TAAATT
1 TAAATT
1433340 TTGAGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (14 bp):
TAAATTCAAACACA
Found at i:1434414 original size:46 final size:46
Alignment explanation
Indices: 1434347--1434541 Score: 295
Period size: 46 Copynumber: 4.2 Consensus size: 46
1434337 GGGTCCCTCG
* *
1434347 AAGGTTATGACAGAAGGTGATGCGTTGAGCATCATCAAGGGGCTCA
1 AAGGTTGTGATAGAAGGTGATGCGTTGAGCATCATCAAGGGGCTCA
1434393 AAGGTTGTGATAGAAGGTGATGCGTTGAGCATCATCAAGGGGCTCA
1 AAGGTTGTGATAGAAGGTGATGCGTTGAGCATCATCAAGGGGCTCA
*
1434439 AAGGTTGTGATAGAAGGTGATAG-GTTGGGCATCATCAAGGGGCTCA
1 AAGGTTGTGATAGAAGGTGAT-GCGTTGAGCATCATCAAGGGGCTCA
* * *
1434485 AAGGTTGTAATAGAAGGTGATGCGTT-AGGTATCATCAAGAGGCTCA
1 AAGGTTGTGATAGAAGGTGATGCGTTGA-GCATCATCAAGGGGCTCA
*
1434531 AAGGTTCTGAT
1 AAGGTTGTGAT
1434542 CCGGATATCT
Statistics
Matches: 137, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
45 1 0.01
46 135 0.99
47 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (46 bp):
AAGGTTGTGATAGAAGGTGATGCGTTGAGCATCATCAAGGGGCTCA
Found at i:1434445 original size:26 final size:26
Alignment explanation
Indices: 1434416--1434491 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 26
1434406 AAGGTGATGC
1434416 GTTGAGCATCATCAAGGGGCTCAAAG
1 GTTGAGCATCATCAAGGGGCTCAAAG
* * * *
1434442 GTTGTG-AT-A-GAA--GG-TGATAG
1 GTTGAGCATCATCAAGGGGCTCAAAG
*
1434462 GTTGGGCATCATCAAGGGGCTCAAAG
1 GTTGAGCATCATCAAGGGGCTCAAAG
1434488 GTTG
1 GTTG
1434492 TAATAGAAGG
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
20 9 0.25
21 4 0.11
22 1 0.03
23 4 0.11
24 1 0.03
25 4 0.11
26 13 0.36
ACGTcount: A:0.28, C:0.13, G:0.36, T:0.24
Consensus pattern (26 bp):
GTTGAGCATCATCAAGGGGCTCAAAG
Found at i:1435019 original size:20 final size:20
Alignment explanation
Indices: 1434990--1435038 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1434980 CACTCCACGT
*
1434990 TAAAAAAAAATCAGAAACAA
1 TAAAATAAAATCAGAAACAA
* *
1435010 TAAAATAAAATGATAAACAA
1 TAAAATAAAATCAGAAACAA
*
1435030 -AATATAAAA
1 TAAAATAAAA
1435039 GGGAGTAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (20 bp):
TAAAATAAAATCAGAAACAA
Found at i:1437901 original size:17 final size:18
Alignment explanation
Indices: 1437873--1437907 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
1437863 AAATGTTAAT
1437873 AAATAAATAATATAATTA
1 AAATAAATAATATAATTA
1437891 AAATAAA-AATATAATTA
1 AAATAAATAATATAATTA
1437908 CATCTCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAAATAATATAATTA
Found at i:1443060 original size:17 final size:16
Alignment explanation
Indices: 1443031--1443075 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
1443021 ATTTCGAATT
1443031 AAATATTAA-TAAATAA
1 AAATA-TAATTAAATAA
1443047 ATAATATAATTAAAATAA
1 A-AATATAATT-AAATAA
1443065 AAATATAATTA
1 AAATATAATTA
1443076 CATCTCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.19
17 14 0.54
18 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATAATTAAATAA
Found at i:1443316 original size:17 final size:17
Alignment explanation
Indices: 1443296--1443392 Score: 54
Period size: 18 Copynumber: 5.4 Consensus size: 17
1443286 ATATGATTAT
1443296 AATATAAATATATATAA
1 AATATAAATATATATAA
1443313 AATATTATAATATATAATATA
1 AATA-TA-AATATAT-ATA-A
*
1443334 AATTATTAATATAT-TAA
1 AA-TATAAATATATATAA
* * * *
1443351 TATTTAAATAATATTTTA
1 AATATAAAT-ATATATAA
* *
1443369 AATTTAATTATAATATAA
1 AATATAAATAT-ATATAA
1443387 AA-ATAA
1 AATATAA
1443393 TAAAACACGA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
16 5 0.08
17 15 0.24
18 19 0.31
19 7 0.11
20 10 0.16
21 4 0.06
22 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATATAAATATATATAA
Found at i:1443335 original size:22 final size:22
Alignment explanation
Indices: 1443291--1443353 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 22
1443281 AAATAATATG
1443291 ATTATAATATAAATATATATAAAAT
1 ATTATAATAT--ATA-ATATAAAAT
*
1443316 ATTATAATATATAATATAAATT
1 ATTATAATATATAATATAAAAT
1443338 A-T-TAATATATTAATAT
1 ATTATAATATA-TAATAT
1443354 TTAAATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 7 0.19
21 7 0.19
22 9 0.25
23 3 0.08
25 10 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTATAATATATAATATAAAAT
Found at i:1443362 original size:32 final size:32
Alignment explanation
Indices: 1443294--1443364 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
1443284 TAATATGATT
*
1443294 ATAATATAAATATATATAAAATATTATAATAT
1 ATAATATAAATATATATAAAATATTATAATAA
* *
1443326 ATAATATAAAT-TAT-TAATATATTAATATTTAA
1 ATAATATAAATATATATAAAATATT-ATA-ATAA
1443358 ATAATAT
1 ATAATAT
1443365 TTTAAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.24
31 6 0.18
32 20 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAATATAAATATATATAAAATATTATAATAA
Found at i:1445448 original size:20 final size:20
Alignment explanation
Indices: 1445403--1445448 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1445393 GTTAACAGCC
*
1445403 CATGATTCATGCATTTTAAG
1 CATGTTTCATGCATTTTAAG
1445423 CTATGTTTCATGCA-TTTACAG
1 C-ATGTTTCATGCATTTTA-AG
1445444 CATGT
1 CATGT
1445449 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTAAG
Found at i:1458197 original size:18 final size:16
Alignment explanation
Indices: 1458192--1458290 Score: 103
Period size: 17 Copynumber: 6.1 Consensus size: 16
1458182 AAAAAGAGAC
*
1458192 AAAAAAAAAC-AAACA
1 AAAAAAAAACAAAAAA
*
1458207 AACAAAAAACAAAAACA
1 AAAAAAAAACAAAAA-A
1458224 AAAAAAAAACAAAAAA
1 AAAAAAAAACAAAAAA
1458240 CAAAAAACAAACAAAAAA
1 -AAAAAA-AAACAAAAAA
* *
1458258 ACAAAAAAA-AAACAA
1 AAAAAAAAACAAAAAA
*
1458273 AAAAAACAACAACAAAA
1 AAAAAAAAACAA-AAAA
1458290 A
1 A
1458291 GGGTCCGGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
15 21 0.30
16 9 0.13
17 30 0.43
18 10 0.14
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAAAA
Found at i:1458216 original size:11 final size:11
Alignment explanation
Indices: 1458190--1458290 Score: 93
Period size: 11 Copynumber: 9.0 Consensus size: 11
1458180 AAAAAAAGAG
1458190 ACAAA-AAAAA
1 ACAAACAAAAA
1458200 ACAAACAAACAA
1 ACAAACAAA-AA
1458212 A-AAAC-AAAA
1 ACAAACAAAAA
*
1458221 ACAAAAAAAAA
1 ACAAACAAAAA
1458232 ACAAAAAACAAAAA
1 AC---AAACAAAAA
1458246 ACAAACAAAAAA
1 ACAAAC-AAAAA
*
1458258 ACAAAAAAAAA
1 ACAAACAAAAA
*
1458269 ACAAAAAAAACA
1 ACAAACAAAA-A
1458281 AC-AACAAAAA
1 ACAAACAAAAA
1458291 GGGTCCGGAT
Statistics
Matches: 78, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
9 3 0.04
10 11 0.14
11 38 0.49
12 16 0.21
14 10 0.13
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (11 bp):
ACAAACAAAAA
Found at i:1458228 original size:42 final size:40
Alignment explanation
Indices: 1458175--1458290 Score: 136
Period size: 39 Copynumber: 3.0 Consensus size: 40
1458165 GCATCCTCCG
1458175 CAAAAA-AAAAAAGAGACAAAAAAAAACAAACAAACAAAAAA
1 CAAAAACAAAAAA-A-ACAAAAAAAAACAAACAAACAAAAAA
* *
1458216 CAAAAACAAAAAAAA-AACAAAAAACAAA-AAACAAACAA
1 CAAAAACAAAAAAAACAAAAAAAAACAAACAAACAAAAAA
*
1458254 -AAAAACAAAAAAAAAACAAAAAAAAC-AAC-AACAAAAA
1 CAAAAACAAAAAAAACA-AAAAAAAACAAACAAACAAAAA
1458291 GGGTCCGGAT
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
37 14 0.21
38 19 0.28
39 20 0.30
40 1 0.01
41 7 0.10
42 6 0.09
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (40 bp):
CAAAAACAAAAAAAACAAAAAAAAACAAACAAACAAAAAA
Found at i:1458245 original size:46 final size:47
Alignment explanation
Indices: 1458179--1458290 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 47
1458169 CCTCCGCAAA
1458179 AAAAAAAAGAGACAAAAAAAAACAAACAAAC-AAAAAAC-----AAAAAC
1 AAAAAAAA-A-ACAAAAAAAAA-AAACAAACAAAAAAACAAAAAAAAAAC
1458223 AAAAAAAAAACAAAAAACAAAAAACAAACAAAAAAACAAAAAAAAAAC
1 AAAAAAAAAACAAAAAA-AAAAAACAAACAAAAAAACAAAAAAAAAAC
*
1458271 AAAAAAAACAACAACAAAAA
1 AAAAAAAA-AACAAAAAAAA
1458291 GGGTCCGGAT
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
42 16 0.27
43 11 0.19
44 8 0.14
48 16 0.27
49 8 0.14
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (47 bp):
AAAAAAAAAACAAAAAAAAAAAACAAACAAAAAAACAAAAAAAAAAC
Found at i:1458284 original size:31 final size:29
Alignment explanation
Indices: 1458179--1458290 Score: 125
Period size: 31 Copynumber: 3.7 Consensus size: 29
1458169 CCTCCGCAAA
* *
1458179 AAAAAAAAGAGACAAAAAAAAACAAACAAAC
1 AAAAAAAA-A-ACAAAAAAAAAAAAAAAAAC
*
1458210 AAAAAACAAAAACAAAAAAAAAACAAAAAAC
1 -AAAAA-AAAAACAAAAAAAAAAAAAAAAAC
*
1458241 AAAAAACAAACAAAAAAACAAAAAAAAAAC
1 AAAAAAAAAACAAAAAAA-AAAAAAAAAAC
*
1458271 AAAAAAAACAACAACAAAAA
1 AAAAAAAA-AACAAAAAAAA
1458291 GGGTCCGGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
29 12 0.17
30 23 0.33
31 26 0.37
32 6 0.09
33 3 0.04
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (29 bp):
AAAAAAAAAACAAAAAAAAAAAAAAAAAC
Found at i:1458290 original size:1 final size:1
Alignment explanation
Indices: 1458176--1458278 Score: 80
Period size: 1 Copynumber: 103.0 Consensus size: 1
1458166 CATCCTCCGC
* * * * * * * * * *
1458176 AAAAAAAAAAAGAGACAAAAAAAAACAAACAAACAAAAAACAAAAACAAAAAAAAAACAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
1458241 AAAAAACAAACAAAAAAACAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1458279 CAACAACAAA
Statistics
Matches: 74, Mismatches: 28, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:1459855 original size:49 final size:48
Alignment explanation
Indices: 1459796--1460049 Score: 247
Period size: 49 Copynumber: 5.6 Consensus size: 48
1459786 AAGTCTAATA
1459796 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAGGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTA-GACCAATG
* * * * *
1459845 TTGCTGGCCTTGAATCAACACATTGGCA-C---A-----AGCCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAGACCAATG
1459884 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT-AGACCAATG
* * * * *
1459933 TCACTGGCCTTGAATAAGCACATTGGCA-C---A-----AGCCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAGACCAATG
*
1459972 TCGCTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT-AGACCAATG
*
1460021 TCACTGGCCTTGAATCAGCATATTGGCAC
1 TCGCTGGCCTTGAATCAGCATATTGGCAC
1460050 AAGCCAGCTG
Statistics
Matches: 162, Mismatches: 23, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
39 62 0.38
40 3 0.02
43 2 0.01
45 2 0.01
48 2 0.01
49 91 0.56
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (48 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAGACCAATG
Found at i:1459893 original size:39 final size:39
Alignment explanation
Indices: 1459847--1460000 Score: 148
Period size: 39 Copynumber: 3.7 Consensus size: 39
1459837 GACCAATGTT
1459847 GCTGGCCTTGAATCAACACATTGGCACAAGCCCAATATC
1 GCTGGCCTTGAATCAACACATTGGCACAAGCCCAATATC
* * * *
1459886 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAACACATTGG---C---A-C---AAGCCCAATATC
*
1459935 ACTGGCCTTGAAT-AAGCACATTGGCACAAGCCCAATATC
1 GCTGGCCTTGAATCAA-CACATTGGCACAAGCCCAATATC
*
1459974 GCTGGCCTTGAATCAACATATTGGCAC
1 GCTGGCCTTGAATCAACACATTGGCAC
1460001 CTTTATCTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
39 54 0.59
40 2 0.02
42 2 0.02
43 1 0.01
45 1 0.01
46 2 0.02
48 1 0.01
49 29 0.32
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (39 bp):
GCTGGCCTTGAATCAACACATTGGCACAAGCCCAATATC
Found at i:1459941 original size:88 final size:88
Alignment explanation
Indices: 1459792--1460054 Score: 456
Period size: 88 Copynumber: 3.0 Consensus size: 88
1459782 TTCTAAGTCT
* **
1459792 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAGGACCAATGTTGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTG
1459857 AATCAACACATTGGCACAAGCCC
66 AATCAACACATTGGCACAAGCCC
1459880 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTG
1459945 AAT-AAGCACATTGGCACAAGCCC
66 AATCAA-CACATTGGCACAAGCCC
*
1459968 AATATCGCTGGCCTTGAATCAACATATTGGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTG
* *
1460033 AATCAGCATATTGGCACAAGCC
66 AATCAACACATTGGCACAAGCC
1460055 AGCTGCAAAC
Statistics
Matches: 167, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
87 2 0.01
88 164 0.98
89 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (88 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCACTGGCCTTG
AATCAACACATTGGCACAAGCCC
Found at i:1460995 original size:20 final size:20
Alignment explanation
Indices: 1460942--1460996 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1460932 AAAATTCCAG
**
1460942 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
1460962 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
1460982 ATGTATCGATACATT
1 ATGTATCGATACATT
1460997 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:1461054 original size:19 final size:19
Alignment explanation
Indices: 1461026--1461121 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
1461016 AGCGATATAT
*
1461026 TGTATGGATACAACACTTA
1 TGTATCGATACAACACTTA
*
1461045 TGTATCGAT---ATA--T-
1 TGTATCGATACAACACTTA
1461058 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1461077 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1461090 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1461109 TGTATCGATACAA
1 TGTATCGATACAA
1461122 ATTGTTGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 18 0.29
14 2 0.03
16 10 0.16
18 2 0.03
19 30 0.48
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1461059 original size:32 final size:32
Alignment explanation
Indices: 1461013--1461118 Score: 185
Period size: 32 Copynumber: 3.3 Consensus size: 32
1461003 GCAGTAGCTT
* *
1461013 TGTAGCGATATATTGTATGGATACAACACTTA
1 TGTATCGATATATTGTATCGATACAACACTTA
1461045 TGTATCGATATATTGTATCGATACAACACTTA
1 TGTATCGATATATTGTATCGATACAACACTTA
*
1461077 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATATATTGTATCGATACAACACTTA
1461109 TGTATCGATA
1 TGTATCGATA
1461119 CAAATTGTTG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (32 bp):
TGTATCGATATATTGTATCGATACAACACTTA
Found at i:1461095 original size:13 final size:13
Alignment explanation
Indices: 1461045--1461101 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1461035 ACAACACTTA
*
1461045 TGTATCGATATAT
1 TGTATCGATACAT
1461058 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1461076 ATGTATCGATACAT
1 -TGTATCGATACAT
1461090 TGTATCGATACA
1 TGTATCGATACA
1461102 ACACTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 21 0.57
14 1 0.03
16 5 0.14
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1463580 original size:13 final size:13
Alignment explanation
Indices: 1463558--1463615 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1463548 GGCAGTAGCT
*
1463558 TTGTAGCGATACA
1 TTGTATCGATACA
1463571 TTGTATCGATACAA
1 TTGTATCGATAC-A
1463585 CGCTTATGTATCGATACA
1 ----T-TGTATCGATACA
1463603 TTGTATCGATACA
1 TTGTATCGATACA
1463616 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
14 2 0.05
18 2 0.05
19 11 0.29
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1463596 original size:19 final size:18
Alignment explanation
Indices: 1463572--1463634 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1463562 AGCGATACAT
1463572 TGTATCGATACAACGCTTA
1 TGTATCGATACAAC-CTTA
1463591 TGTATCGATAC-A---T-
1 TGTATCGATACAACCTTA
1463604 TGTATCGATACAACACTTA
1 TGTATCGATACAAC-CTTA
1463623 TGTATCGATACA
1 TGTATCGATACA
1463635 GTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 2 0.05
18 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAACCTTA
Found at i:1463605 original size:32 final size:32
Alignment explanation
Indices: 1463555--1463634 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
1463545 CTTGGCAGTA
*
1463555 GCTT-TGTAGCGATACATTGTATCGATACAAC
1 GCTTATGTATCGATACATTGTATCGATACAAC
1463586 GCTTATGTATCGATACATTGTATCGATACAAC
1 GCTTATGTATCGATACATTGTATCGATACAAC
*
1463618 ACTTATGTATCGATACA
1 GCTTATGTATCGATACA
1463635 GTTACTGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 4 0.09
32 42 0.91
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (32 bp):
GCTTATGTATCGATACATTGTATCGATACAAC
Found at i:1469472 original size:15 final size:15
Alignment explanation
Indices: 1469452--1469499 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
1469442 ATTCTACCAA
1469452 ATCCACCACAAAATC
1 ATCCACCACAAAATC
** *
1469467 ATCCACCACCTAATT
1 ATCCACCACAAAATC
*
1469482 ACCCACCACAAAATC
1 ATCCACCACAAAATC
1469497 ATC
1 ATC
1469500 GATACATTAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.17
Consensus pattern (15 bp):
ATCCACCACAAAATC
Found at i:1475270 original size:9 final size:9
Alignment explanation
Indices: 1475244--1475273 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1475234 TTTCATACCA
*
1475244 AAAAAAAAA
1 AAAAAAAAC
1475253 AAAAAAAAC
1 AAAAAAAAC
1475262 AAAAAAAAC
1 AAAAAAAAC
1475271 AAA
1 AAA
1475274 CAAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1476610 original size:29 final size:28
Alignment explanation
Indices: 1476511--1476848 Score: 446
Period size: 28 Copynumber: 11.8 Consensus size: 28
1476501 TGTTCATCTC
*
1476511 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1476539 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1476567 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1476595 TCTCAAAGCTCACAAGTTAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
1476624 TCTCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
*
1476653 TCTCAAAGCCCACAAGTCAGTGGCATCAT
1 T-TCAAAGCCCACAAGTCAGTGGCATCCT
*
1476682 TTCAAAGCCCACAAGTCAGTGGCATCCA
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
1476710 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
1476738 TTCAAAGCCCACAAGTCAGTAGTACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
1476767 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CA-TCCT
* *
1476797 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CA-TCCT
1476827 TTCAAAGCCCACAAGTCAGTGG
1 TTCAAAGCCCACAAGTCAGTGG
1476849 TAACTTTTTT
Statistics
Matches: 288, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
28 133 0.46
29 101 0.35
30 52 0.18
31 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:1476802 original size:143 final size:143
Alignment explanation
Indices: 1476511--1476848 Score: 466
Period size: 143 Copynumber: 2.3 Consensus size: 143
1476501 TGTTCATCTC
* * *
1476511 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCC
* * * * *
1476576 CACAAGTCAGTGGCATCCTTCTCAAAGCTCACAAGTTAGTGGCATCCTTCTCAAAGCCCACAAGT
66 CACAAGTCAGTGGCACCCTTCTCAAAGCCCACAAGTCAGTAGCACCCTTCTCAAAGCCCACAAGT
*
1476641 CAGTGGCATCCTT
131 CAGTGGCAACCTT
* *
1476654 CTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCCATTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCC
* *
1476719 CACAAGTCAGTGGCACCCTT-TCAAAGCCCACAAGTCAGTAGTACCCTTTTCAAAGCCCACAAG-
66 CACAAGTCAGTGGCACCCTTCTCAAAGCCCACAAGTCAGTAGCACCCTTCTCAAAGCCCACAAGT
*
1476782 CTAGTGGTAACTCTT
131 C-AGTGGCAAC-CTT
* *
1476797 TTCAAAGCCCACAAG-CTAGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGG
1 TTCAAAGCCCACAAGTC-AGTGG-CA-TCATTTCAAAGCCCACAAGTCAGTGG
1476849 TAACTTTTTT
Statistics
Matches: 173, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
141 1 0.01
142 45 0.26
143 101 0.58
144 1 0.01
145 25 0.14
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (143 bp):
TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCCATTCAAAGCC
CACAAGTCAGTGGCACCCTTCTCAAAGCCCACAAGTCAGTAGCACCCTTCTCAAAGCCCACAAGT
CAGTGGCAACCTT
Found at i:1476899 original size:32 final size:30
Alignment explanation
Indices: 1476511--1476912 Score: 328
Period size: 28 Copynumber: 13.7 Consensus size: 30
1476501 TGTTCATCTC
* * *
1476511 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* * *
1476539 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* * *
1476567 TTCAAAGCCCACAAGTCAGTGGCATC-CTT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* * * *
1476596 CTCAAAGCTCACAAGTTAGTGGCATC-CTT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* * * *
1476625 CTCAAAGCCCACAAGTCAGTGGCATC-CTT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* * * *
1476654 CTCAAAGCCCACAAGTCAGTGG-CA-TCAT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* * **
1476682 TTCAAAGCCCACAAGTCAGTGG-CA-TCCA
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* * *
1476710 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* * *
1476738 TTCAAAGCCCACAAGTCAGTAGT-ACCCTT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
*
1476767 TTCAAAGCCCACAAGCTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
*
1476797 TTCAAAGCCCACAAGCTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* *
1476827 TTCAAAGCCCACAAGTCAGTGGTAACTTTT
1 TTCAAAGCCCACAAGTTAGTGGTAACTCTT
* * *
1476857 TTTAAAGCCCACATAAGTTGGTGGCAACTCTT
1 TTCAAAGCCCAC--AAGTTAGTGGTAACTCTT
1476889 TTCAAAGCCCACACAAGTTAGTGG
1 TTCAAAG-CC-CACAAGTTAGTGG
1476913 CACCTTTTTT
Statistics
Matches: 333, Mismatches: 31, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
28 126 0.38
29 100 0.30
30 73 0.22
32 29 0.09
33 2 0.01
34 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (30 bp):
TTCAAAGCCCACAAGTTAGTGGTAACTCTT
Found at i:1477050 original size:45 final size:46
Alignment explanation
Indices: 1476994--1477114 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 46
1476984 GCCCGATATT
* *
1476994 GCTGGCATTGAATAAGCATATTGGCACCTTT-ATTAGCCCAATGTC
1 GCTGGCCTTGAATAAGCACATTGGCACCTTTCATTAGCCCAATGTC
* * *
1477039 GCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTC
1 GCTGGCCTTGAATAAGCACATTGG--CACCTTT-CATTAGCCCAATGTC
**
1477088 GCTGGCCTTGAATTGGCACATTGGCAC
1 GCTGGCCTTGAATAAGCACATTGGCAC
1477115 TCCTCTCATC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 21 0.32
47 9 0.14
49 35 0.54
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (46 bp):
GCTGGCCTTGAATAAGCACATTGGCACCTTTCATTAGCCCAATGTC
Found at i:1477610 original size:16 final size:16
Alignment explanation
Indices: 1477572--1477728 Score: 68
Period size: 16 Copynumber: 9.8 Consensus size: 16
1477562 TTTGAGCAAA
1477572 AGCTATTCTAAACAAG
1 AGCTATTCTAAACAAG
* *
1477588 AGTTATTGC-AAACAAT
1 AGCTATT-CTAAACAAG
* *
1477604 AGCTATTCTGAATAAG
1 AGCTATTCTAAACAAG
* * *
1477620 AGC-AGTTTTGAACAAC
1 AGCTA-TTCTAAACAAG
* * *
1477636 AACTAATTCTAAGCAAA
1 AGCT-ATTCTAAACAAG
* * *
1477653 AGCCATTTTGAACAAG
1 AGCTATTCTAAACAAG
* * * *
1477669 CA-TTGTTCTTAACAAC
1 -AGCTATTCTAAACAAG
* *
1477685 AGCTATTCCAAATAAG
1 AGCTATTCTAAACAAG
* *
1477701 AGCTATTCTTAACACG
1 AGCTATTCTAAACAAG
1477717 AGCTATTCTAAA
1 AGCTATTCTAAA
1477729 TGATAGTTGT
Statistics
Matches: 97, Mismatches: 37, Indels: 14
0.66 0.25 0.09
Matches are distributed among these distances:
15 3 0.03
16 82 0.85
17 11 0.11
18 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (16 bp):
AGCTATTCTAAACAAG
Found at i:1478704 original size:50 final size:50
Alignment explanation
Indices: 1478623--1478763 Score: 198
Period size: 50 Copynumber: 2.8 Consensus size: 50
1478613 AAAAATCACA
* *
1478623 TTTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTC
1 TTTTTA-CCAGATGTATCGATACTTTATTCAATGTATCGATACATTCTGTC
*
1478674 TTTTTACCAGATGTATCGATACTTTTTTCAATGTATC-AGTACATTCTGTC
1 TTTTTACCAGATGTATCGATACTTTATTCAATGTATCGA-TACATTCTGTC
*
1478724 TTTAT-CCAGATGTATCGATA-TATTATTCAATGTATCGATA
1 TTTTTACCAGATGTATCGATACT-TTATTCAATGTATCGATA
1478764 TATCTAGTCA
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
48 1 0.01
49 31 0.37
50 45 0.54
51 6 0.07
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (50 bp):
TTTTTACCAGATGTATCGATACTTTATTCAATGTATCGATACATTCTGTC
Found at i:1480404 original size:10 final size:11
Alignment explanation
Indices: 1480389--1480417 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1480379 CCACTAGATG
1480389 ATTTTTCAAA-
1 ATTTTTCAAAT
1480399 ATTTTTCAAAT
1 ATTTTTCAAAT
1480410 ATTTTTCA
1 ATTTTTCA
1480418 TCAAGACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTTTCAAAT
Found at i:1482227 original size:50 final size:49
Alignment explanation
Indices: 1482137--1482271 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 49
1482127 TTTCACAATT
* * *
1482137 TGTATCGATACATTCTTCATTGTATCGATACATTCTAGGTTTTACCCTGA
1 TGTATTGATATATT-TTCATTGTATCGATACATTCTAGGTTTTACCCAGA
* *
1482187 TGTTTTGATATATTATTCATTGTATCGATAAATTCTAGGTTTTACCCAGA
1 TGTATTGATATATT-TTCATTGTATCGATACATTCTAGGTTTTACCCAGA
*
1482237 TGTATTGATATATTTCTCAATGTATCGATACATTC
1 TGTATTGATATATTT-TCATTGTATCGATACATTC
1482272 AAGCATTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 74 0.99
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (49 bp):
TGTATTGATATATTTTCATTGTATCGATACATTCTAGGTTTTACCCAGA
Found at i:1490190 original size:20 final size:20
Alignment explanation
Indices: 1490146--1490203 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1490136 ATTTCAACGA
***
1490146 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATATTTT
*
1490166 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
1490186 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
1490204 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:1490262 original size:13 final size:13
Alignment explanation
Indices: 1490244--1490268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1490234 ATTACTCACA
1490244 TGTATCGATACAT
1 TGTATCGATACAT
1490257 TGTATCGATACA
1 TGTATCGATACA
1490269 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1490405 original size:52 final size:52
Alignment explanation
Indices: 1490277--1490397 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1490267 CACTGATCTT
*
1490277 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1490329 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1490381 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1490398 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1494568 original size:10 final size:10
Alignment explanation
Indices: 1494553--1494579 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1494543 TGCTAACTAA
1494553 GTTTTTGTTT
1 GTTTTTGTTT
1494563 GTTTTTGTTT
1 GTTTTTGTTT
1494573 GTTTTTG
1 GTTTTTG
1494580 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:1504275 original size:1 final size:1
Alignment explanation
Indices: 1504269--1504354 Score: 64
Period size: 1 Copynumber: 86.0 Consensus size: 1
1504259 GGCGTCCTCC
* * ** ** * * *
1504269 AAAAAAACAAAAAAAAAACAAAAAAAAACGAAAAAAAATGAAAAAAAAAACAAAAACAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
1504334 AAACAAACAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAA
1504355 GGGGGTCCGA
Statistics
Matches: 63, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:1504284 original size:10 final size:10
Alignment explanation
Indices: 1504269--1504354 Score: 88
Period size: 10 Copynumber: 8.5 Consensus size: 10
1504259 GGCGTCCTCC
1504269 AAAAAAACAAA
1 AAAAAAAC-AA
1504280 AAAAAAACAA
1 AAAAAAACAA
1504290 AAAAAAACGAA
1 AAAAAAAC-AA
1504301 AAAAAATGA-AA
1 AAAAAA--ACAA
1504312 AAAAAAAC-A
1 AAAAAAACAA
* *
1504321 AAAACAA-TA
1 AAAAAAACAA
1504330 AAAAAAACAA
1 AAAAAAACAA
*
1504340 ACAAAAACAA
1 AAAAAAACAA
1504350 AAAAA
1 AAAAA
1504355 GGGGGTCCGA
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
9 15 0.23
10 24 0.38
11 24 0.38
13 1 0.02
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:1504295 original size:21 final size:21
Alignment explanation
Indices: 1504269--1504354 Score: 104
Period size: 22 Copynumber: 4.0 Consensus size: 21
1504259 GGCGTCCTCC
1504269 AAAAAAACAAAAA-AAAAACAA
1 AAAAAAACAAAAACAAAAA-AA
*
1504290 AAAAAAACGAAAAA-AAATGAAA
1 AAAAAAAC-AAAAACAAA-AAAA
1504312 AAAAAAACAAAAACAATAAAAA
1 AAAAAAACAAAAACAA-AAAAA
*
1504334 AAACAAACAAAAACAAAAAAA
1 AAAAAAACAAAAACAAAAAAA
1504355 GGGGGTCCGA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
21 18 0.31
22 38 0.66
23 2 0.03
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (21 bp):
AAAAAAACAAAAACAAAAAAA
Found at i:1505897 original size:27 final size:27
Alignment explanation
Indices: 1505823--1505908 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
1505813 TGGCATTTTT
* ***
1505823 TTCAAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAGCCCACAAATCAGTGGCA--ACC
*
1505852 TTCAAAAGCCCACACATCAGTGGCAACC
1 TTC-AAAGCCCACAAATCAGTGGCAACC
*
1505880 TTCAAAGCCCACAAATCAGTGGCACCC
1 TTCAAAGCCCACAAATCAGTGGCAACC
1505907 TT
1 TT
1505909 TTTCGAAGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
27 24 0.49
28 3 0.06
29 3 0.06
30 19 0.39
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (27 bp):
TTCAAAGCCCACAAATCAGTGGCAACC
Found at i:1506111 original size:88 final size:88
Alignment explanation
Indices: 1505793--1506262 Score: 397
Period size: 88 Copynumber: 5.4 Consensus size: 88
1505783 TTCATCACCC
* *** * ***
1505793 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
**
1505858 AGCCCACACA-TCAGTGGCA-A-CC
65 AGCCCACA-AGTCAGTGGCATATTT
* * ** * * *
1505880 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCCACAAGTCGGTGGCA-TCTTTTCCA
1 TTCAAAAGCCCACAAGTCAGTGGCAACC--TTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAA
* * * *
1505943 AAGTCCACAACTCCGTGGCACTCTTT
64 AAGCCCACAAGTCAGTGGCA-TATTT
** * * * ** *
1505969 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTT-TCAGCCCACAAGTTAGTGGCACCCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTGGCACCCTTT
1506031 TCAAAAGCCCACAAGTCAGTGGCATATTT
60 TCAAAAGCCCACAAGTCAGTGGCATATTT
* *
1506060 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
1506125 GCCCACAAGTCAGTGGCATATTT
66 GCCCACAAGTCAGTGGCATATTT
*
1506148 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACC--TTC-AAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
* ***
1506210 GCCCACAAATCAGTGGCACCCTT
66 GCCCACAAGTCAGTGGCATATTT
** * *
1506233 TTCCGAAGCCCACAAATCGGTGGC-ACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTT
1506263 TCCATCTTTA
Statistics
Matches: 319, Mismatches: 47, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
84 6 0.02
85 43 0.13
86 46 0.14
87 44 0.14
88 109 0.34
89 3 0.01
91 24 0.08
92 27 0.08
93 1 0.00
94 15 0.05
95 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (88 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
GCCCACAAGTCAGTGGCATATTT
Found at i:1506122 original size:58 final size:59
Alignment explanation
Indices: 1505793--1506262 Score: 346
Period size: 57 Copynumber: 8.0 Consensus size: 59
1505783 TTCATCACCC
* *** ***
1505793 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
* * *
1505852 TTCAAAAGCCCACACA-TCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTTT
1 TTCAAAAGCCCACA-AGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC--T
* * * * * * *
1505910 TTC-GAAGCCCACAAGTCGGTGGCA-TCTTTTCCAAAGTCCACAACTCCGTGGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-C--T
** * * * * * *
1505969 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTC---AGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
***
1506030 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* * **
1506089 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
*
1506148 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
* ** * *
1506204 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAATCGGTGGC-ACCT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1506261 TT
1 TT
1506263 TCCATCTTTA
Statistics
Matches: 333, Mismatches: 53, Indels: 52
0.76 0.12 0.12
Matches are distributed among these distances:
55 22 0.07
56 12 0.04
57 80 0.24
58 77 0.23
59 55 0.17
60 44 0.13
61 5 0.02
62 15 0.05
63 1 0.00
64 15 0.05
65 7 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:1506244 original size:30 final size:30
Alignment explanation
Indices: 1505793--1506264 Score: 379
Period size: 30 Copynumber: 16.1 Consensus size: 30
1505783 TTCATCACCC
* ***
1505793 TTCAAAAGTCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
***
1505823 TTC-AAAGCCCACAAGTCAGTGGCATTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
1505852 TTCAAAAGCCCACACA-TCAGTGGCAACC--
1 TTCAAAAGCCCACA-AGTCAGTGGCACCCTT
*
1505880 TTC-AAAGCCCACAAATCAGTGGCACCCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCC-TT
* * *
1505910 TTC-GAAGCCCACAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
1505938 TTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAC-CCTT
** * * * *
1505969 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACCCTT
*
1506003 TTC---AGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
***
1506030 TTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
1506060 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
1506089 TT-AAAAGCCCACAAGTTAGTGGCACCCTG
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
***
1506118 TTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
1506148 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
1506177 TT-AAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
1506204 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
** * *
1506233 TTCCGAAGCCCACAAATCGGTGGCA-CCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
1506262 TTC
1 TTC
1506265 CATCTTTAAG
Statistics
Matches: 368, Mismatches: 50, Indels: 49
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.01
27 65 0.18
28 56 0.15
29 64 0.17
30 154 0.42
31 6 0.02
34 5 0.01
35 16 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:1506336 original size:43 final size:43
Alignment explanation
Indices: 1506268--1506357 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
1506258 CCTTTTCCAT
*
1506268 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * * *
1506311 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
1506354 CTTT
1 CTTT
1506358 TTCATCTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:1506394 original size:52 final size:52
Alignment explanation
Indices: 1506311--1506525 Score: 252
Period size: 52 Copynumber: 4.1 Consensus size: 52
1506301 ACATTGGCAC
*
1506311 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
* * *
1506363 CTTTCAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
* * * *
1506415 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTT--TCAT
* * * * * * *
1506471 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCA-
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
1506522 CTTT
1 CTTT
1506526 TCTCATCATC
Statistics
Matches: 137, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
51 4 0.03
52 87 0.64
53 2 0.01
54 7 0.05
55 1 0.01
56 36 0.26
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
Found at i:1506500 original size:108 final size:104
Alignment explanation
Indices: 1506311--1506517 Score: 261
Period size: 108 Copynumber: 2.0 Consensus size: 104
1506301 ACATTGGCAC
* * * * *
1506311 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTCAGTCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTTCATCTTTAAGCCCAAT
* *
1506376 ATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
66 ATAGCTGGCCATGAATCAACATATCGGCACCTTTTCCAT
* *
1506415 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTT--TCATCTTTAAGCC
* * * *
1506480 CAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
62 CAATATAGCTGGCCATGAATCAACATATCGGCACCTTT
1506518 ATCACTTTTC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
104 37 0.43
105 2 0.02
106 4 0.05
108 43 0.50
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (104 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTTCATCTTTAAGCCCAAT
ATAGCTGGCCATGAATCAACATATCGGCACCTTTTCCAT
Found at i:1507419 original size:33 final size:33
Alignment explanation
Indices: 1507382--1507448 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1507372 TTCAACGATT
1507382 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1507415 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1507448 T
1 T
1507449 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1507420 original size:13 final size:13
Alignment explanation
Indices: 1507402--1507426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1507392 CATAAAATGT
1507402 TGTATCGATACAA
1 TGTATCGATACAA
1507415 TGTATCGATACA
1 TGTATCGATACA
1507427 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1507509 original size:13 final size:13
Alignment explanation
Indices: 1507491--1507515 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1507481 ATTACTCACA
1507491 TGTATCGATACAT
1 TGTATCGATACAT
1507504 TGTATCGATACA
1 TGTATCGATACA
1507516 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1507652 original size:52 final size:52
Alignment explanation
Indices: 1507524--1507644 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1507514 CACTGATCTT
*
1507524 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1507576 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1507628 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1507645 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1517957 original size:13 final size:12
Alignment explanation
Indices: 1517939--1517980 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
1517929 TCCTCCGCAA
1517939 AAAAAAAACACAG
1 AAAAAAAACA-AG
1517952 AAAAAAAA-AAG
1 AAAAAAAACAAG
1517963 -AAAAAAAC-AG
1 AAAAAAAACAAG
1517973 AAAAAAAA
1 AAAAAAAA
1517981 AACAACAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.33
11 9 0.33
12 1 0.04
13 8 0.30
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAG
Found at i:1517970 original size:23 final size:21
Alignment explanation
Indices: 1517937--1517982 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
1517927 CATCCTCCGC
*
1517937 AAAAA-AAAAACACAGAAAAA
1 AAAAAGAAAAAAACAGAAAAA
1517957 AAAAAGAAAAAAACAGAAAAA
1 AAAAAGAAAAAAACAGAAAAA
1517978 AAAAA
1 AAAAA
1517983 CAACAACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAAACAGAAAAA
Found at i:1517980 original size:11 final size:11
Alignment explanation
Indices: 1517940--1517980 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
1517930 CCTCCGCAAA
1517940 AAAAAAACACAG
1 AAAAAAA-ACAG
*
1517952 AAAAAAAAAAG
1 AAAAAAAACAG
1517963 -AAAAAAACAG
1 AAAAAAAACAG
1517973 AAAAAAAA
1 AAAAAAAA
1517981 AACAACAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAG
Found at i:1517993 original size:22 final size:20
Alignment explanation
Indices: 1517937--1517981 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
1517927 CATCCTCCGC
*
1517937 AAAAA-AAAAACACAGAAAAA
1 AAAAAGAAAAAAACAG-AAAA
1517957 AAAAAGAAAAAAACAGAAAA
1 AAAAAGAAAAAAACAGAAAA
1517977 AAAAA
1 AAAAA
1517982 ACAACAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAACAGAAAA
Found at i:1519479 original size:29 final size:29
Alignment explanation
Indices: 1519444--1519697 Score: 194
Period size: 29 Copynumber: 8.6 Consensus size: 29
1519434 CCTTCAAAAA
1519444 CCCACAAGTCAGTGGCATCTTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTTCAAAG
1519473 CCCACAAGTCAGTGGCATCTTTTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTTCAAAG
* * *
1519502 TCCACAAGTCAGTGGCAAC--CTTCAAAG
1 CCCACAAGTCAGTGGCATCTTTTTCAAAG
* * * * *
1519529 CCCACAAATCAGTGGCACCCTTTTCCGATG
1 CCCACAAGTCAGTGGCA-TCTTTTTCAAAG
* * *
1519559 CCCACAAATCGGTGGCATCTTTTCCAAAG
1 CCCACAAGTCAGTGGCATCTTTTTCAAAG
* *
1519588 TCCACAACTCCA-TGGCACTCTTTTGT--AAG
1 CCCACAAGT-CAGTGGCA-TCTTTT-TCAAAG
* * * * *
1519617 CTCACAACTCTGTAGCACTCTTTTTCCTTTTAAG
1 CCCACAAGTCAGTGGCA-TCTTTTT-C---AAAG
* * *
1519651 CCCACAAGTTAGTGGCACCCTTTTCAAAAG
1 CCCACAAGTCAGTGGCATCTTTTTC-AAAG
1519681 CCCACAAGTCAGTGGCA
1 CCCACAAGTCAGTGGCA
1519698 ACCTTCAAAA
Statistics
Matches: 180, Mismatches: 32, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
27 22 0.12
28 3 0.02
29 88 0.49
30 46 0.26
32 1 0.01
33 5 0.03
34 15 0.08
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
CCCACAAGTCAGTGGCATCTTTTTCAAAG
Found at i:1519552 original size:86 final size:87
Alignment explanation
Indices: 1519434--1519715 Score: 257
Period size: 86 Copynumber: 3.2 Consensus size: 87
1519424 CATTCCTCAC
* *
1519434 CCTTCAAAAACCCACAAGTCAGTGGCA-TCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTC
1 CCTTCAAAAGCCCACAAATCAGTGGCACTCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTC
1519498 AAAGTCCACAAGTCAGTGGCAA
66 AAAGTCCACAAGTCAGTGGCAA
* * * * * * *
1519520 CCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGATGCCCACAAATCGGTGGCATCTTTTCC
1 CCTTCAAAAGCCCACAAATCAGTGGCACTCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTC
*
1519584 AAAGTCCACAACTCCA-TGGC-A
66 AAAGTCCACAAGT-CAGTGGCAA
*** * * * * * * *
1519605 CTCTTTTGTAAGCTCACAACTCTGTAGCACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCACC
1 C-C-TTCAAAAGCCCACAAATCAGTGGCACTCTTTTT-C---AAAGCCCACAAGTCAGTGGCATC
* *
1519670 CTTTTCAAAAGCCCACAAGTCAGTGGCAA
60 TTTTTC-AAAGTCCACAAGTCAGTGGCAA
*
1519699 CCTTCAAAAGCACACAA
1 CCTTCAAAAGCCCACAA
1519716 GTTGATGCAA
Statistics
Matches: 152, Mismatches: 32, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
85 21 0.14
86 52 0.34
87 4 0.03
88 22 0.14
89 1 0.01
92 34 0.22
93 16 0.11
94 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (87 bp):
CCTTCAAAAGCCCACAAATCAGTGGCACTCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTC
AAAGTCCACAAGTCAGTGGCAA
Found at i:1519553 original size:56 final size:57
Alignment explanation
Indices: 1519445--1519553 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 57
1519435 CTTCAAAAAC
* * * * *
1519445 CCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGT
1 CCACAAGTCAGTGGCAAC-TCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCAAAGT
1519503 CCACAAGTCAGTGGCAAC-CTTCAAAGCCCACAAATCAGTGGCACCCTTTTC
1 CCACAAGTCAGTGGCAACTCTTCAAAGCCCACAAATCAGTGGCACCCTTTTC
1519554 CGATGCCCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 29 0.63
58 17 0.37
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (57 bp):
CCACAAGTCAGTGGCAACTCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCAAAGT
Found at i:1519683 original size:30 final size:30
Alignment explanation
Indices: 1519648--1519743 Score: 112
Period size: 30 Copynumber: 3.3 Consensus size: 30
1519638 TTTTCCTTTT
*
1519648 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTTCAA
*
1519678 AAGCCCACAAGTCAGTGGCAACC--TTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTTCAA
*
1519706 AAGCACACAAGTT-GAT-GCAAACCTTTT-AA
1 AAGCCCACAAGTTAG-TGGC-AACCTTTTCAA
1519735 AAGCCCACA
1 AAGCCCACA
1519744 CAAGTTGGTG
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.05
28 21 0.37
29 10 0.18
30 23 0.40
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.19
Consensus pattern (30 bp):
AAGCCCACAAGTTAGTGGCAACCTTTTCAA
Found at i:1519714 original size:28 final size:29
Alignment explanation
Indices: 1519436--1519743 Score: 132
Period size: 29 Copynumber: 10.5 Consensus size: 29
1519426 TTCCTCACCC
* * *
1519436 TTCAAAAACCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CT
* *
1519466 TTC-AAAGCCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CT
*
1519495 TTC-AAAGTCCACAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT
* *
1519522 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
** * * * * *
1519551 TTCCGATGCCCACAAATCGGTGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT
* * *
1519580 TTCCAAAGTCCACAACTCCA-TGGC-ACTCT
1 TTCAAAAGCCCACAAGT-CAGTGGCAAC-CT
*** * * * *
1519609 TTTGTAAGCTCACAACTCTGTAGC-ACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-C--T
** * *
1519640 TTCCTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TT-C--AAAAGCCCACAAGTCAGTGGCAACC-T
1519673 TTCAAAAGCCCACAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT
* *
1519701 TTCAAAAGCACACAAGT-TGAT-GCAAACCT
1 TTCAAAAGCCCACAAGTCAG-TGGC-AACCT
*
1519730 TTTAAAAGCCCACA
1 TTCAAAAGCCCACA
1519744 CAAGTTGGTG
Statistics
Matches: 221, Mismatches: 42, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
27 27 0.12
28 23 0.10
29 102 0.46
30 44 0.20
31 3 0.01
32 1 0.00
33 4 0.02
34 16 0.07
35 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:1519843 original size:52 final size:51
Alignment explanation
Indices: 1519765--1520006 Score: 286
Period size: 52 Copynumber: 4.8 Consensus size: 51
1519755 CGTCTTCTTC
1519765 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGGT-ACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-GTCACC-T
* * * *
1519817 TAAGTCCACTGTAGCTGGCCTTGAATCAGCACATTGGCACC----T--CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCACCT
*
1519861 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA-CCT
* * ** *
1519912 TAAGTCCTATATCGCTGGCCTTGGATCAGCATATTGGCTTCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA-CCT
*
1519964 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1520007 CATCTTTAAC
Statistics
Matches: 162, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
43 35 0.22
46 2 0.01
47 2 0.01
50 2 0.01
52 121 0.75
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (51 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCACCT
Found at i:1519929 original size:95 final size:95
Alignment explanation
Indices: 1519766--1520006 Score: 281
Period size: 95 Copynumber: 2.4 Consensus size: 95
1519756 GTCTTCTTCT
*
1519766 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGGTACCTTTAAGTCCACTGTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGGTACCTTTAAGTCCACTATAG
1519831 CTGGCCTTGAATCAGCACATTGGCACCTCC
66 CTGGCCTTGAATCAGCACATTGGCACCTCC
*
1519861 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCC-TTAAGTCCTA-TA
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGGT-A-CCTTTAAGTCC-ACTA
* * * * *
1519923 TCGCTGGCCTTGGATCAGCATATTGGCTTCTTTGTCATCTTT
63 TAGCTGGCCTTGAATCAGCACATTGGC-AC-----C-TC--C
*
1519965 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1520007 CATCTTTAAC
Statistics
Matches: 125, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
94 2 0.02
95 76 0.61
96 4 0.03
101 1 0.01
102 2 0.02
104 40 0.32
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGGTACCTTTAAGTCCACTATAG
CTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:1521297 original size:50 final size:49
Alignment explanation
Indices: 1521207--1521341 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 49
1521197 TTTCACAATT
* * *
1521207 TGTATCGATACATTCTTCATTGTATCGATACATTCTAGGTTTTACCCTGA
1 TGTATTGATATATT-TTCATTGTATCGATACATTCTAGGTTTTACCCAGA
* *
1521257 TGTTTTGATATATTATTCATTGTATCGATAAATTCTAGGTTTTACCCAGA
1 TGTATTGATATATT-TTCATTGTATCGATACATTCTAGGTTTTACCCAGA
*
1521307 TGTATTGATATATTTCTCAATGTATCGATACATTC
1 TGTATTGATATATTT-TCATTGTATCGATACATTC
1521342 AAGCATTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 74 0.99
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (49 bp):
TGTATTGATATATTTTCATTGTATCGATACATTCTAGGTTTTACCCAGA
Found at i:1522653 original size:13 final size:13
Alignment explanation
Indices: 1522635--1522659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1522625 CATAAAGTGT
1522635 TGTATCGATACAA
1 TGTATCGATACAA
1522648 TGTATCGATACA
1 TGTATCGATACA
1522660 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1522657 original size:33 final size:33
Alignment explanation
Indices: 1522615--1522681 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1522605 TTCAACGATT
1522615 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1522648 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1522681 T
1 T
1522682 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1522740 original size:13 final size:12
Alignment explanation
Indices: 1522700--1522780 Score: 70
Period size: 13 Copynumber: 7.1 Consensus size: 12
1522690 CTGCCAAAAA
1522700 ATGTATCGATAC
1 ATGTATCGATAC
1522712 AT-TACTC-A-A-
1 ATGTA-TCGATAC
1522721 ATGTATCGATAC
1 ATGTATCGATAC
1522733 ATTGTATCGATAC
1 A-TGTATCGATAC
1522746 AT-TACTC-A-A-
1 ATGTA-TCGATAC
1522755 ATGTATCGATAC
1 ATGTATCGATAC
1522767 ATTGTATCGATAC
1 A-TGTATCGATAC
1522780 A
1 A
1522781 CTGATCTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 23
0.71 0.00 0.29
Matches are distributed among these distances:
9 8 0.14
10 8 0.14
11 8 0.14
12 9 0.16
13 24 0.42
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:1522744 original size:34 final size:34
Alignment explanation
Indices: 1522701--1522780 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
1522691 TGCCAAAAAA
1522701 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
1522735 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
1522769 TGTATCGATACA
1 TGTATCGATACA
1522781 CTGATCTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:1522845 original size:52 final size:52
Alignment explanation
Indices: 1522789--1522914 Score: 234
Period size: 52 Copynumber: 2.4 Consensus size: 52
1522779 CACTGATCTT
*
1522789 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1522841 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1522893 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
1522915 CTTCCATATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1527417 original size:79 final size:79
Alignment explanation
Indices: 1527301--1527472 Score: 184
Period size: 79 Copynumber: 2.2 Consensus size: 79
1527291 TAACCCCAAT
* * * * *
1527301 TTTTATTTCTAAAACACTGATTTTCCATAATCGGGGATACTCTAACCCCATTATTT-CTAAGGAG
1 TTTTATTTCCAAAACACTGATTTTCCACAATCAGGGATACTCCAACCCCATCATTTCCT-AGGAG
*
1527365 ATATTCCAACCTCGG
65 ATACTCCAACCTCGG
* * * * * * *
1527380 TTTTATTTCCAAAACATTGATTTTTCACCATTAGGGATACTCCAACCTCGTCATTTCCTAGGGGA
1 TTTTATTTCCAAAACACTGATTTTCCACAATCAGGGATACTCCAACCCCATCATTTCCTAGGAGA
* *
1527445 TACTCCAACGTCGT
66 TACTCCAACCTCGG
*
1527459 TTTTATCTCCAAAA
1 TTTTATTTCCAAAA
1527473 TATCAAATTT
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
79 74 0.97
80 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (79 bp):
TTTTATTTCCAAAACACTGATTTTCCACAATCAGGGATACTCCAACCCCATCATTTCCTAGGAGA
TACTCCAACCTCGG
Found at i:1528187 original size:20 final size:19
Alignment explanation
Indices: 1528164--1528232 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 19
1528154 CATATCCAGA
*
1528164 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
1528184 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
1528203 TGTATCGATACATACTCAAT
1 TGTATCGATACATGTTC-AT
1528223 TGTATCGATA
1 TGTATCGATA
1528233 TATGAAACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 17 0.39
20 26 0.59
21 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:1529830 original size:81 final size:80
Alignment explanation
Indices: 1529695--1529856 Score: 195
Period size: 81 Copynumber: 2.0 Consensus size: 80
1529685 AGTTTTTTTG
* * * * *
1529695 AGCAAAAGCTATTCAAAACAAGAGTTATTGTGAATAATAGCTATTCTAAATAAGAG-TAGTTTTT
1 AGCAAAAGCCATTCAAAACAAGAGTTATTCTGAACAATAGCTATTCCAAATAAGAGCTA-TTCTT
1529759 AACAACAA-CTAATTCTA
65 AAC-ACAAGCT-ATTCTA
* * *
1529776 AGCAAAAGCCATTCTAAACAAGCA-TTGTTCTTAACAATAGCTATTCCAAATAAGAGCTATTCTT
1 AGCAAAAGCCATTCAAAACAAG-AGTTATTCTGAACAATAGCTATTCCAAATAAGAGCTATTCTT
1529840 AACACAAGCTATTCTA
65 AACACAAGCTATTCTA
1529856 A
1 A
1529857 ATGCAAGCTG
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
80 11 0.16
81 56 0.80
82 3 0.04
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (80 bp):
AGCAAAAGCCATTCAAAACAAGAGTTATTCTGAACAATAGCTATTCCAAATAAGAGCTATTCTTA
ACACAAGCTATTCTA
Found at i:1531116 original size:21 final size:21
Alignment explanation
Indices: 1531090--1531140 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1531080 AACTAAGTTG
**
1531090 GTGTCA-TTGGACTCTTGATTA
1 GTGTCACTT-GACTCTCAATTA
1531111 GTGTCACTTGACTCTCAATTA
1 GTGTCACTTGACTCTCAATTA
*
1531132 GTGTTACTT
1 GTGTCACTT
1531141 AACTTGTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (21 bp):
GTGTCACTTGACTCTCAATTA
Found at i:1531543 original size:13 final size:13
Alignment explanation
Indices: 1531525--1531549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1531515 ATGTTGCACA
1531525 GTATCGATACATT
1 GTATCGATACATT
1531538 GTATCGATACAT
1 GTATCGATACAT
1531550 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1531662 original size:32 final size:32
Alignment explanation
Indices: 1531621--1531684 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
1531611 GTAGCCAAAC
*
1531621 TTGTATCGATACACACAGTATGTGTCGATACA
1 TTGTATCGATACACACAGTATGTATCGATACA
**
1531653 TTGTATCGATAGGCACAGTATGTATCGATACA
1 TTGTATCGATACACACAGTATGTATCGATACA
1531685 CCAAAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (32 bp):
TTGTATCGATACACACAGTATGTATCGATACA
Found at i:1532484 original size:13 final size:13
Alignment explanation
Indices: 1532466--1532491 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1532456 AATTTTTTTG
1532466 TGTATCGATACAT
1 TGTATCGATACAT
1532479 TGTATCGATACAT
1 TGTATCGATACAT
1532492 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1535056 original size:26 final size:26
Alignment explanation
Indices: 1535027--1535090 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
1535017 ATAAACCCCC
1535027 TGTATCGATACACTGTATCGATACAA
1 TGTATCGATACACTGTATCGATACAA
1535053 TGTATCGATACACTGTATCGATACAA
1 TGTATCGATACACTGTATCGATACAA
1535079 TGTATCGATACA
1 TGTATCGATACA
1535091 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (26 bp):
TGTATCGATACACTGTATCGATACAA
Found at i:1535091 original size:13 final size:13
Alignment explanation
Indices: 1535027--1535091 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
1535017 ATAAACCCCC
*
1535027 TGTATCGATACAC
1 TGTATCGATACAA
1535040 TGTATCGATACAA
1 TGTATCGATACAA
*
1535053 TGTATCGATACAC
1 TGTATCGATACAA
1535066 TGTATCGATACAA
1 TGTATCGATACAA
1535079 TGTATCGATACAA
1 TGTATCGATACAA
1535092 AGAAAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1537173 original size:15 final size:15
Alignment explanation
Indices: 1537153--1537183 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1537143 ATTTCGTTTG
*
1537153 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1537168 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1537183 G
1 G
1537184 TACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1541269 original size:13 final size:13
Alignment explanation
Indices: 1541251--1541276 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1541241 AATTTTTTTG
1541251 TGTATCGATACAT
1 TGTATCGATACAT
1541264 TGTATCGATACAT
1 TGTATCGATACAT
1541277 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1543262 original size:9 final size:9
Alignment explanation
Indices: 1543248--1543278 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1543238 CATCAAGGAC
1543248 GATGAAGAT
1 GATGAAGAT
1543257 GATGAAGAT
1 GATGAAGAT
*
1543266 GATGATGAT
1 GATGAAGAT
1543275 GATG
1 GATG
1543279 GTGACTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (9 bp):
GATGAAGAT
Found at i:1547836 original size:13 final size:13
Alignment explanation
Indices: 1547818--1547843 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1547808 ACAGCATTCT
1547818 TTGTATCGATACA
1 TTGTATCGATACA
1547831 TTGTATCGATACA
1 TTGTATCGATACA
1547844 GGGCGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1549690 original size:39 final size:39
Alignment explanation
Indices: 1549638--1549801 Score: 310
Period size: 39 Copynumber: 4.2 Consensus size: 39
1549628 CTTTGCAAAT
1549638 AAATTTATGATTAAGGGGGAGTAAGAAATATGTGATTAA
1 AAATTTATGATTAAGGGGGAGTAAGAAATATGTGATTAA
* *
1549677 AAATATATGATTAAGGGGGAGTATGAAATATGTGATTAA
1 AAATTTATGATTAAGGGGGAGTAAGAAATATGTGATTAA
1549716 AAATTTATGATTAAGGGGGAGTAAGAAATATGTGATTAA
1 AAATTTATGATTAAGGGGGAGTAAGAAATATGTGATTAA
1549755 AAATTTATGATTAAGGGGGAGTAAGAAATATGTGATTAA
1 AAATTTATGATTAAGGGGGAGTAAGAAATATGTGATTAA
1549794 AAATTTAT
1 AAATTTAT
1549802 TGTTAAATTG
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 121 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (39 bp):
AAATTTATGATTAAGGGGGAGTAAGAAATATGTGATTAA
Found at i:1550511 original size:13 final size:13
Alignment explanation
Indices: 1550493--1550517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1550483 ACACAAAGTA
1550493 TGTATCGATACAT
1 TGTATCGATACAT
1550506 TGTATCGATACA
1 TGTATCGATACA
1550518 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1550514 original size:32 final size:33
Alignment explanation
Indices: 1550473--1550540 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1550463 GTAGCCAAAC
*
1550473 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
1550505 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
1550538 TTG
1 TTG
1550541 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:1556742 original size:13 final size:13
Alignment explanation
Indices: 1556724--1556748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1556714 CAAAGATCAG
1556724 TGTATCGATACAA
1 TGTATCGATACAA
1556737 TGTATCGATACA
1 TGTATCGATACA
1556749 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1556826 original size:33 final size:33
Alignment explanation
Indices: 1556789--1556855 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1556779 AGTAGCTTAA
1556789 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1556822 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1556855 A
1 A
1556856 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1556829 original size:13 final size:13
Alignment explanation
Indices: 1556811--1556835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1556801 CAAAAAAATA
1556811 TGTATCGATACAT
1 TGTATCGATACAT
1556824 TGTATCGATACA
1 TGTATCGATACA
1556836 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1557742 original size:67 final size:68
Alignment explanation
Indices: 1557620--1557746 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
1557610 ATTGGGTTTT
* * *
1557620 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1557685 AGA
66 AGA
* * ** *
1557688 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGCTATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1557747 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:1557968 original size:49 final size:49
Alignment explanation
Indices: 1557759--1558803 Score: 1398
Period size: 49 Copynumber: 21.7 Consensus size: 49
1557749 AAAAGGATGT
*
1557759 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1557811 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1557854 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1557902 CAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1557951 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1558000 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1558049 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1558098 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1558141 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG-A-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1558188 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-GGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1558236 CAATGTGCTGATTCAAGGCCAGCTGCATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1558285 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1558334 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1558383 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1558432 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1558481 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1558530 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1558579 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1558628 TAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1558671 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1558719 CACTGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1558768 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1558804 GAAGGGTCGC
Statistics
Matches: 874, Mismatches: 99, Indels: 43
0.86 0.10 0.04
Matches are distributed among these distances:
43 111 0.13
45 2 0.00
46 6 0.01
47 47 0.05
48 135 0.15
49 541 0.62
52 32 0.04
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1558851 original size:33 final size:31
Alignment explanation
Indices: 1558796--1558907 Score: 136
Period size: 33 Copynumber: 3.5 Consensus size: 31
1558786 CCAGCTATAT
*
1558796 TGGGC-TTAGAAGGGTCGCCACCGACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
1558826 TGGGCTTTAGAGAGTGGTTGCCACCGACTTGTG
1 TGGGCTTTAGA-AG-GGTTGCCACCGACTTGTG
* *
1558859 TGGGCTTTGGAAGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAG--GGTTGCCACCGACTTGTG
*
1558892 TGGGCGTTAGGAAGGG
1 TGGGCTTTA-GAAGGG
1558908 AGAAAGATGC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
30 5 0.07
31 5 0.07
32 6 0.08
33 51 0.72
34 4 0.06
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
Found at i:1558948 original size:34 final size:35
Alignment explanation
Indices: 1558903--1559242 Score: 352
Period size: 34 Copynumber: 9.9 Consensus size: 35
1558893 GGGCGTTAGG
* * *
1558903 AAGGGAGAAAGATGCCATGGAGTTGTGGAC-TTAA
1 AAGGGAAAAAGATGCCACGGAGTTGTGGGCTTTAA
1558937 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGGAAAAAGA-TGCCACGGAGTTGTGGGCTTTAA
*
1558973 AA-GAAAAAAG-TGCCACGGAGTTGTGGGCTTTGAA
1 AAGGGAAAAAGATGCCACGGAGTTGTGGGCTTT-AA
1559007 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGGAAAAAGA-TGCCACGGAGTTGTGGGCTTTAA
*
1559043 ATA--GAAAAAGGTGCCACGGAGTTGTGGGCTTTAA
1 A-AGGGAAAAAGATGCCACGGAGTTGTGGGCTTTAA
* * *
1559077 AA-AGAAAAAGGTGCCACGGAGTTGTGGAC-TT-A
1 AAGGGAAAAAGATGCCACGGAGTTGTGGGCTTTAA
* *
1559109 AAGATGAAAAAAATGCCACGGAGTTGTGGGCTTTGAA
1 AAG-GGAAAAAGATGCCACGGAGTTGTGGGCTTT-AA
* *
1559146 AA--GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGGAAAAAGATGCCACGGAGTTGTGGGCTTT-AA
* * *
1559180 AA---AAAGAAGGTGTCGCGGAGTTGTGGGCTTT-A
1 AAGGGAAA-AAGATGCCACGGAGTTGTGGGCTTTAA
*
1559212 AA-GG-AAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAGGGAAAAAGATGCCACGGAGTTGTGGGCTTT
1559243 GAAGAAAAAA
Statistics
Matches: 271, Mismatches: 19, Indels: 34
0.84 0.06 0.10
Matches are distributed among these distances:
32 29 0.11
33 28 0.10
34 141 0.52
35 39 0.14
36 9 0.03
37 25 0.09
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.21
Consensus pattern (35 bp):
AAGGGAAAAAGATGCCACGGAGTTGTGGGCTTTAA
Found at i:1558995 original size:68 final size:67
Alignment explanation
Indices: 1558910--1559263 Score: 436
Period size: 68 Copynumber: 5.2 Consensus size: 67
1558900 AGGAAGGGAG
* *
1558910 AAAGATGCCATGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
1558974 AGAAA
63 AGAAA
1558979 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
1559044 TAGAAA
63 -AGAAA
* * *
1559050 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGAT
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-A-
1559114 GAAA
64 GAAA
* *
1559118 AAAATGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA
1559182 -AAA
64 GAAA
* * * *
1559185 GAAGGTGTCGCGGAGTTGTGGGCTTT-AAAGG-AAAAGGTGCCACGGAGTTGTGGGCTTT-GAAG
1 -AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
1559247 AAA
65 AAA
*
1559250 AAA-TGCCACTGAGT
1 AAAGTGCCACGGAGT
1559264 CATGGACTTT
Statistics
Matches: 255, Mismatches: 20, Indels: 26
0.85 0.07 0.09
Matches are distributed among these distances:
63 8 0.03
64 4 0.02
65 3 0.01
66 29 0.11
67 10 0.04
68 106 0.42
69 20 0.08
70 46 0.18
71 29 0.11
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.21
Consensus pattern (67 bp):
AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGA
AA
Found at i:1559167 original size:102 final size:101
Alignment explanation
Indices: 1558914--1559251 Score: 420
Period size: 102 Copynumber: 3.3 Consensus size: 101
1558904 AGGGAGAAAG
* *
1558914 ATGCCATGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGA
1 ATGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGA
* *
1558977 AAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGA
63 AAAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAGAAAAA-A
*
1559019 GTGCCACGGAGTTGTGGGCTTTAAATAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 ATGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
*
1559084 AAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAA
65 AAGGTGCCACGGAGTTGTGGGCTTTAAAGA-GAAAAAA
*
1559121 ATGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAA-AA
1 ATGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGAA
* * * *
1559185 GAAGGTGTCGCGGAGTTGTGGGCTTTAAAG-G-AAAAG
64 AAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGAAAAAA
* *
1559221 GTGCCACGGAGTTGTGGGCTTT-GAAGAAAAA
1 ATGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1559252 ATGCCACTGA
Statistics
Matches: 210, Mismatches: 16, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
98 7 0.03
100 25 0.12
101 1 0.00
102 76 0.36
103 20 0.10
104 24 0.11
105 51 0.24
106 5 0.02
107 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.21
Consensus pattern (101 bp):
ATGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
AGGTGCCACGGAGTTGTGGGCTTTAAAGAGAAAAAA
Found at i:1559350 original size:93 final size:94
Alignment explanation
Indices: 1559197--1559400 Score: 270
Period size: 93 Copynumber: 2.2 Consensus size: 94
1559187 AGGTGTCGCG
* * * * *
1559197 GAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGA
1 GAGTCGTGGACTTTAAAGGAAAAGATGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTGA
1559262 GTCATGGACTTTGAGACA-A-AATGCCACT
66 GTCATGGACTTTGAGA-AGAGAATGCCACT
* * * *
1559290 GAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTT-AAGCAGAGATTGCCACTG
1 GAGTCGTGGACTTTAAAGGAAAAGATGCCACGGAGTCGTGGACTTTGAAG-AAAAAATGCCACTG
* *
1559354 AGTCGTGGACTTTGAGAAGAGATTGCCACT
65 AGTCATGGACTTTGAGAAGAGAATGCCACT
1559384 GAGTCGTGGACTTTAAA
1 GAGTCGTGGACTTTAAA
1559401 AAGGTATTTG
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
92 4 0.04
93 68 0.70
94 25 0.26
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (94 bp):
GAGTCGTGGACTTTAAAGGAAAAGATGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTGA
GTCATGGACTTTGAGAAGAGAATGCCACT
Found at i:1559353 original size:31 final size:31
Alignment explanation
Indices: 1559222--1559399 Score: 193
Period size: 31 Copynumber: 5.7 Consensus size: 31
1559212 AAGGAAAAGG
* * * * *
1559222 TGCCACGGAGTTGTGGGCTTTGAAGAA-AAAA
1 TGCCACTGAGTCGTGGACTTT-AAGAAGAGAT
* * *
1559253 TGCCACTGAGTCATGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTAAGA-AGAGAT
*
1559283 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-
1 TGCCACTGAGTCGTGGACTTT-AA-GAAGAGAT
*
1559315 TGCCACTGAGTCGTGGACTTTAAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGAT
*
1559346 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGAT
1559377 TGCCACTGAGTCGTGGACTTTAA
1 TGCCACTGAGTCGTGGACTTTAA
1559400 AAAGGTATTT
Statistics
Matches: 129, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
30 30 0.23
31 74 0.57
32 24 0.19
33 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAAGAAGAGAT
Found at i:1560401 original size:16 final size:15
Alignment explanation
Indices: 1560347--1560400 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 15
1560337 AAAGGGGTTG
*
1560347 TTCTTTTTTTTTTCT
1 TTCTTTTTTTTTTGT
*
1560362 TT-TTTTTTTTTTGC
1 TTCTTTTTTTTTTGT
*
1560376 ATCTTTTTTGTTTTGT
1 TTCTTTTTT-TTTTGT
1560392 TTCTTTTTT
1 TTCTTTTTT
1560401 GGAAAAGAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 11 0.34
15 8 0.25
16 13 0.41
ACGTcount: A:0.02, C:0.09, G:0.06, T:0.83
Consensus pattern (15 bp):
TTCTTTTTTTTTTGT
Done.