Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 62
Found at i:1484565 original size:29 final size:29
Alignment explanation
Indices: 1484523--1484608 Score: 163
Period size: 29 Copynumber: 3.0 Consensus size: 29
1484513 GAGCAAGGGT
*
1484523 AGGTCTCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
1484552 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
1484581 AGGTCGCCCGGAGTGCATGGCGACCTAC
1 AGGTCGCCCGGAGTGCATGGCGACCTAC
1484609 GGCCAACACT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.20, C:0.31, G:0.34, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:1490981 original size:2 final size:2
Alignment explanation
Indices: 1490974--1491006 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1490964 AATCATACAT
1490974 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1491007 CCTATACAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1495201 original size:11 final size:11
Alignment explanation
Indices: 1495185--1495210 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1495175 ATACAAACAC
1495185 ACATATGGCAA
1 ACATATGGCAA
1495196 ACATATGGCAA
1 ACATATGGCAA
1495207 ACAT
1 ACAT
1495211 GCCTCTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (11 bp):
ACATATGGCAA
Found at i:1499517 original size:15 final size:15
Alignment explanation
Indices: 1499470--1499520 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
1499460 AAATTATAAG
1499470 TTTAATATCTAAATT
1 TTTAATATCTAAATT
* * **
1499485 ATTAAT-TTTATCTAT
1 TTTAATATCTAAAT-T
1499500 TTTAATATCTAAATT
1 TTTAATATCTAAATT
1499515 TTTAAT
1 TTTAAT
1499521 TTTTATAAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAATATCTAAATT
Found at i:1502820 original size:60 final size:60
Alignment explanation
Indices: 1502708--1502822 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
1502698 ATAATCAGAT
* *
1502708 GATCATTTTGTAACTTTTAATAGTCGAGTGACTCAAAAAAGAACCACTCTATAGTTAGGG
1 GATCATTTTGTAACTTTTAATAGTCGAGAGACTCAAAAAAGAACCACCCTATAGTTAGGG
* * * *
1502768 GATCATTTTGTAACTTTTAATAGTTGAGAGACTTAATAAAGTAA-TACCCTATAGT
1 GATCATTTTGTAACTTTTAATAGTCGAGAGACTCAAAAAAG-AACCACCCTATAGT
1502823 CGGACAACCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 46 0.96
61 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (60 bp):
GATCATTTTGTAACTTTTAATAGTCGAGAGACTCAAAAAAGAACCACCCTATAGTTAGGG
Found at i:1504783 original size:20 final size:21
Alignment explanation
Indices: 1504752--1504806 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
1504742 AACAAAGGGT
*
1504752 TGGTATCAATACTCTAG-CT-
1 TGGTATCGATACTCTAGTCTG
*
1504771 TGAGTATCGATACTTCTGGTCTG
1 TG-GTATCGATAC-TCTAGTCTG
1504794 TGGTATCGATACT
1 TGGTATCGATACT
1504807 TCCATGAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 9 0.30
21 5 0.17
22 12 0.40
23 2 0.07
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (21 bp):
TGGTATCGATACTCTAGTCTG
Found at i:1504819 original size:18 final size:18
Alignment explanation
Indices: 1504796--1504861 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
1504786 CTGGTCTGTG
1504796 GTATCGATACTTCCATGA
1 GTATCGATACTTCCATGA
* *
1504814 GTATCGATCCTTTACCCTTG-
1 GTATCGATAC-TT--CCATGA
* *
1504834 GTATCGATACCTCCACGA
1 GTATCGATACTTCCATGA
1504852 GTATCGATAC
1 GTATCGATAC
1504862 AAAAAATGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.08
18 19 0.50
19 3 0.08
20 9 0.24
21 4 0.11
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (18 bp):
GTATCGATACTTCCATGA
Found at i:1507691 original size:15 final size:15
Alignment explanation
Indices: 1507659--1507704 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
1507649 TTTTCACCCT
* *
1507659 CCCGACCCGACCCGA
1 CCCGACCCAACCCAA
*
1507674 CCCGACCCAATCCAA
1 CCCGACCCAACCCAA
*
1507689 CCCAACCCAACCCAA
1 CCCGACCCAACCCAA
1507704 C
1 C
1507705 TTCCCCTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.30, C:0.59, G:0.09, T:0.02
Consensus pattern (15 bp):
CCCGACCCAACCCAA
Found at i:1508126 original size:120 final size:120
Alignment explanation
Indices: 1507976--1508206 Score: 392
Period size: 120 Copynumber: 1.9 Consensus size: 120
1507966 TCTCTATTCT
* *
1507976 GTCGAGATAGACAAAGATAAATTGTATTAAATCTAGCCTATTACACTTATCTAATTTTATGTTGA
1 GTCGAGATAGACAAAGATAAATTGTATTAAATATAGCCTATTACACTTATCTAATCTTATGTTGA
* *
1508041 TATCA-TATTTTCTATTTTCTACTTATAAATTCCTAATAATTTTGTTGACTCATCA
66 TAT-AGTATTTTCTAATTTCTACTTATAAATTCCAAATAATTTTGTTGACTCATCA
*
1508096 GTCGAGATAGACAAAGATAAATTGTTTTAAATATAGCCTATTACACTTATCTAATCTTATGTTGA
1 GTCGAGATAGACAAAGATAAATTGTATTAAATATAGCCTATTACACTTATCTAATCTTATGTTGA
*
1508161 TATAGTATTTTTTAATTTCTACTTATAAATTCCAAATAATTTTGTT
66 TATAGTATTTTCTAATTTCTACTTATAAATTCCAAATAATTTTGTT
1508207 TAAGTGATAT
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
119 1 0.01
120 103 0.99
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.44
Consensus pattern (120 bp):
GTCGAGATAGACAAAGATAAATTGTATTAAATATAGCCTATTACACTTATCTAATCTTATGTTGA
TATAGTATTTTCTAATTTCTACTTATAAATTCCAAATAATTTTGTTGACTCATCA
Found at i:1513390 original size:2 final size:2
Alignment explanation
Indices: 1513385--1513419 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1513375 ATGAAAATCC
* *
1513385 AT AT AT TT AT TT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1513420 GATAGATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:1517542 original size:14 final size:14
Alignment explanation
Indices: 1517523--1517552 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1517513 CCGCGGGAGT
1517523 TTGCTTAAAATTTG
1 TTGCTTAAAATTTG
1517537 TTGCTTAAAATTTG
1 TTGCTTAAAATTTG
1517551 TT
1 TT
1517553 TGAGCATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (14 bp):
TTGCTTAAAATTTG
Found at i:1524948 original size:21 final size:21
Alignment explanation
Indices: 1524924--1524966 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1524914 AAAAAGTAAA
1524924 AAATAAAACTGC-AATTGAAGC
1 AAATAAAAC-GCAAATTGAAGC
**
1524945 AAATATGACGCAAATTGAAGC
1 AAATAAAACGCAAATTGAAGC
1524966 A
1 A
1524967 GAAACGCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (21 bp):
AAATAAAACGCAAATTGAAGC
Found at i:1525905 original size:22 final size:22
Alignment explanation
Indices: 1525879--1525920 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1525869 GATAAATTTC
* *
1525879 AAAATATTCTCATTAATTTTTA
1 AAAATATTCTAACTAATTTTTA
1525901 AAAATATTCTAACTAATTTT
1 AAAATATTCTAACTAATTTT
1525921 CTAAGTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAATATTCTAACTAATTTTTA
Found at i:1526769 original size:15 final size:16
Alignment explanation
Indices: 1526749--1526782 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1526739 CAATCCAAAC
1526749 TTTTAGGGCGCTT-CA
1 TTTTAGGGCGCTTGCA
1526764 TTTTAGGGCGCTTGCA
1 TTTTAGGGCGCTTGCA
1526780 TTT
1 TTT
1526783 CACCCTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.12, C:0.18, G:0.26, T:0.44
Consensus pattern (16 bp):
TTTTAGGGCGCTTGCA
Found at i:1538342 original size:68 final size:68
Alignment explanation
Indices: 1538232--1538373 Score: 259
Period size: 68 Copynumber: 2.1 Consensus size: 68
1538222 AAGCAGGTAC
*
1538232 TATCAGCCATCTGCATTGTGCAACAAGTAACACTTCTTCTATATGCTGAACTATCGATTTGACAC
1 TATCAGCCATCTGCATTGTGCAACAAGTAACACTTCTTCTATATGCTGAACTATCAATTTGACAC
1538297 TTTT
66 -TTT
1538301 TATCAGCCATCTGCA-TGTGCAACAAGTAACACTTCTTCTATATGCTGAACTATCAATTTGACAC
1 TATCAGCCATCTGCATTGTGCAACAAGTAACACTTCTTCTATATGCTGAACTATCAATTTGACAC
1538365 TTT
66 TTT
1538368 TATCAG
1 TATCAG
1538374 TCAGGCAATA
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 9 0.12
68 48 0.67
69 15 0.21
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (68 bp):
TATCAGCCATCTGCATTGTGCAACAAGTAACACTTCTTCTATATGCTGAACTATCAATTTGACAC
TTT
Found at i:1540165 original size:21 final size:21
Alignment explanation
Indices: 1540139--1540198 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
1540129 ATTTACCGTG
1540139 ATTGCGGTCGTCGCGGGTGCT
1 ATTGCGGTCGTCGCGGGTGCT
**
1540160 ATTGCGGTCGTCGCGGACGCT
1 ATTGCGGTCGTCGCGGGTGCT
* *
1540181 ATTGCGGCCGTCACGGGT
1 ATTGCGGTCGTCGCGGGT
1540199 AACTCGGACA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.08, C:0.27, G:0.40, T:0.25
Consensus pattern (21 bp):
ATTGCGGTCGTCGCGGGTGCT
Found at i:1542152 original size:87 final size:89
Alignment explanation
Indices: 1542015--1542191 Score: 279
Period size: 87 Copynumber: 2.0 Consensus size: 89
1542005 ATCTTAATCA
*
1542015 TCATGTTAACTTCTAGCTTAAACAACAACCACTTTTTAACGAAAAATGACGAATTTAAAACATAA
1 TCATGTTAACTCCTAGCTTAAACAACAACCACTTTTTAACGAAAAATGACGAATTTAAAACATAA
* *
1542080 TGAGTTTGGTGACCATTTTTTAACT
66 TGAGTTTGGT-AACATTTTGTAACT
* *
1542105 TCATGTTAAC-CCTAGCTTAAACAACAA-CAC-TTTTAACGGAAAATGACGAGTTTAAAACATAA
1 TCATGTTAACTCCTAGCTTAAACAACAACCACTTTTTAACGAAAAATGACGAATTTAAAACATAA
1542167 TGAGTTTGGTAACATTTTGTAACT
66 TGAGTTTGGTAACATTTTGTAACT
1542191 T
1 T
1542192 TTGATAGTCG
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
86 13 0.16
87 40 0.49
88 3 0.04
89 16 0.20
90 10 0.12
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (89 bp):
TCATGTTAACTCCTAGCTTAAACAACAACCACTTTTTAACGAAAAATGACGAATTTAAAACATAA
TGAGTTTGGTAACATTTTGTAACT
Found at i:1542230 original size:30 final size:32
Alignment explanation
Indices: 1542191--1542251 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
1542181 TTTTGTAACT
*
1542191 TTTGATAGTCGAAGGACTTAA-AAAACAATAC
1 TTTGATAGTCAAAGGACTTAATAAAACAATAC
*
1542222 TTTG-TAGTCAAAGGAGTTAATAAAACAATA
1 TTTGATAGTCAAAGGACTTAATAAAACAATA
1542252 TCTTATGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (32 bp):
TTTGATAGTCAAAGGACTTAATAAAACAATAC
Found at i:1551410 original size:140 final size:139
Alignment explanation
Indices: 1551155--1551424 Score: 456
Period size: 140 Copynumber: 1.9 Consensus size: 139
1551145 GGGACATATG
* *
1551155 TATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACATGCTGATCCTAGTATATGTATATATT
1 TATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATACTGATCCTAGTATATGTATATATT
1551220 CTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATGGCACTACGGTGCAATTCTACGCGG
66 CTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATGGCACTACGGTGCAATTCTACGCGG
1551285 TCCTTTATA
131 TCCTTTATA
*
1551294 TATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACATATACTTGATCCCTAGTATATGTATAT
1 TATATTCTGTGGAACATGTGTGAAGTCTT-GAAAGACACATAC-TGAT-CCTAGTATATGTATAT
1551359 GATTCTTAAGGAA-T-TATGTGGTCCTTATGGACATCA-TATATGGCACTACGGTGCAATTCTAC
63 -ATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATGGCACTACGGTGCAATTCTAC
1551421 GCGG
127 GCGG
1551425 CACTTCGTCG
Statistics
Matches: 124, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
139 28 0.23
140 41 0.33
141 26 0.21
142 17 0.14
143 12 0.10
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (139 bp):
TATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATACTGATCCTAGTATATGTATATATT
CTTAAGGAATTCTATGTGGTCCTTATGGACATCATTATATGGCACTACGGTGCAATTCTACGCGG
TCCTTTATA
Found at i:1553350 original size:17 final size:17
Alignment explanation
Indices: 1553328--1553366 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1553318 AAGCAACAAA
*
1553328 CATTAAAAAAACATTTC
1 CATTAAAAAAACATATC
*
1553345 CATT-AAGAAACATATC
1 CATTAAAAAAACATATC
1553361 CATTAA
1 CATTAA
1553367 GAAACATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (17 bp):
CATTAAAAAAACATATC
Found at i:1553357 original size:16 final size:16
Alignment explanation
Indices: 1553336--1553374 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
1553326 AACATTAAAA
*
1553336 AAACATTTCCATTAAG
1 AAACATATCCATTAAG
1553352 AAACATATCCATTAAG
1 AAACATATCCATTAAG
1553368 AAACATA
1 AAACATA
1553375 ATAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (16 bp):
AAACATATCCATTAAG
Found at i:1553658 original size:11 final size:11
Alignment explanation
Indices: 1553642--1553681 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
1553632 AAAGTGGGCA
1553642 GGCGGATGCGG
1 GGCGGATGCGG
1553653 GGCGGATGCGG
1 GGCGGATGCGG
1553664 GGCGGATGCGG
1 GGCGGATGCGG
*
1553675 GGTGGAT
1 GGCGGAT
1553682 AATGTCTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.10, C:0.15, G:0.62, T:0.12
Consensus pattern (11 bp):
GGCGGATGCGG
Found at i:1557199 original size:43 final size:43
Alignment explanation
Indices: 1557138--1557220 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
1557128 TTAGGCCTAT
1557138 CAATTTCCATATAGTCAACAGTTGATCTTACTTATTCCTCTAG
1 CAATTTCCATATAGTCAACAGTTGATCTTACTTATTCCTCTAG
1557181 CAATTTCCATATAGTCAACAGTTGATCTTACTTATTCCTC
1 CAATTTCCATATAGTCAACAGTTGATCTTACTTATTCCTC
1557221 CGATATACCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (43 bp):
CAATTTCCATATAGTCAACAGTTGATCTTACTTATTCCTCTAG
Found at i:1557428 original size:15 final size:16
Alignment explanation
Indices: 1557398--1557432 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1557388 TGAGCCTAAG
*
1557398 TTCATAGTCTAGTGCT
1 TTCATAGTCAAGTGCT
1557414 TTCAT-GTCAAGTGCT
1 TTCATAGTCAAGTGCT
1557429 TTCA
1 TTCA
1557433 CCCATGATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (16 bp):
TTCATAGTCAAGTGCT
Found at i:1559232 original size:21 final size:21
Alignment explanation
Indices: 1559208--1559353 Score: 118
Period size: 21 Copynumber: 7.1 Consensus size: 21
1559198 GCAAATTCGC
1559208 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
1559229 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
1559249 TTTCCATTTCGCGTTGCTATA
1 GTTGCATTTCGCGTTGCGATA
* **
1559270 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
1559290 TTTCCATTTTGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
1559311 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
1559331 TTTTCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
1559352 GT
1 GT
1559354 CTACAATGTC
Statistics
Matches: 89, Mismatches: 33, Indels: 6
0.70 0.26 0.05
Matches are distributed among these distances:
20 43 0.48
21 46 0.52
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:1559257 original size:41 final size:41
Alignment explanation
Indices: 1559212--1559399 Score: 267
Period size: 41 Copynumber: 4.6 Consensus size: 41
1559202 ATTCGCGTTG
1559212 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
1559253 CATTTCGCGTTGCTATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
1559294 CATTTTGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
1559335 CATTTCGCGTTGCGATAGTCT-ACAAT-GTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTC
* *
1559376 CAAATT--CGTTGCGATAGTTAAAAA
1 C-ATTTCGCGTTGCGATAGTTGAAAA
1559400 AAAAGATTTT
Statistics
Matches: 134, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.01
40 16 0.12
41 113 0.84
42 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:1559262 original size:20 final size:20
Alignment explanation
Indices: 1559237--1559350 Score: 93
Period size: 20 Copynumber: 5.6 Consensus size: 20
1559227 TAGTTGAAAA
1559237 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
1559257 TCGCGTTGCTATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
1559278 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
1559298 TTGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
1559319 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
1559339 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1559351 AGTCTACAAT
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 40 0.59
21 28 0.41
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1559368 original size:21 final size:19
Alignment explanation
Indices: 1559342--1559393 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
1559332 TTTCATTTCG
*
1559342 CGTTGCGATAGTCTACAATGT
1 CGTTGCGATAGTCCA-AAT-T
**
1559363 CGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCCAAATT
1559382 CGTTGCGATAGT
1 CGTTGCGATAGT
1559394 TAAAAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 11 0.42
20 3 0.12
21 12 0.46
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCCAAATT
Found at i:1559979 original size:6 final size:6
Alignment explanation
Indices: 1559970--1559994 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1559960 GCCGTCCGTC
1559970 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
1559995 AATAAGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:1560134 original size:41 final size:41
Alignment explanation
Indices: 1560089--1560314 Score: 217
Period size: 41 Copynumber: 5.7 Consensus size: 41
1560079 CAACGAATTT
1560089 TCGCAA-CGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACCGAA-TTGGAAAATCGCAACGACAACTGTAGACTA
* * * *
1560130 TCGCAACGCGAACTGGAAAATCGCAACG-CGATTTTCA-ACTA
1 TCGCAAC-CGAATTGGAAAATCGCAACGACAACTGT-AGACTA
* *
1560171 TCGCAACGCGAAATGGAAAATCGCAACG-CTA-T-T----T-
1 TCGCAAC-CGAATTGGAAAATCGCAACGACAACTGTAGACTA
*
1560205 TCGCAA-CGAATTTGGAAAATCGCAACGACAACTGTTGACTA
1 TCGCAACCGAA-TTGGAAAATCGCAACGACAACTGTAGACTA
*
1560246 TCGCAA-CGAATTTGAAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACCGAA-TTGGAAAATCGCAACGACAACTGTAGACTA
*
1560287 TCGCAACGCGAACTGGAAAATCGCAACG
1 TCGCAAC-CGAATTGGAAAATCGCAACG
1560315 CGAAATGGAA
Statistics
Matches: 159, Mismatches: 12, Indels: 27
0.80 0.06 0.14
Matches are distributed among these distances:
32 4 0.03
33 15 0.09
34 8 0.05
35 2 0.01
36 1 0.01
39 1 0.01
40 2 0.01
41 88 0.55
42 30 0.19
43 8 0.05
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (41 bp):
TCGCAACCGAATTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:1560143 original size:22 final size:22
Alignment explanation
Indices: 1560107--1560182 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
1560097 AATTTGGAAA
1560107 ATCGCAACGAC-AACTGTAGACT
1 ATCGCAACG-CGAACTGTAGACT
**
1560129 ATCGCAACGCGAACTG--GAAA
1 ATCGCAACGCGAACTGTAGACT
* *
1560149 ATCGCAACGCG-ATTTTCA-ACT
1 ATCGCAACGCGAACTGT-AGACT
1560170 ATCGCAACGCGAA
1 ATCGCAACGCGAA
1560183 ATGGAAAATC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.05
20 13 0.30
21 13 0.30
22 15 0.35
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.17
Consensus pattern (22 bp):
ATCGCAACGCGAACTGTAGACT
Found at i:1560229 original size:19 final size:19
Alignment explanation
Indices: 1560205--1560273 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
1560195 AACGCTATTT
1560205 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
**
1560224 TCGCAACGACAACTGTT-GACTA
1 TCGCAACG--AA-T-TTGGAAAA
*
1560246 TCGCAACGAATTTGAAAAA
1 TCGCAACGAATTTGGAAAA
1560265 TCGCAACGA
1 TCGCAACGA
1560274 CAACTGTAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 2 0.05
19 20 0.50
20 2 0.05
21 2 0.05
22 12 0.30
23 2 0.05
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:1560251 original size:22 final size:22
Alignment explanation
Indices: 1560223--1560294 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
1560213 AATTTGGAAA
1560223 ATCGCAACGACAACTGTTGACT
1 ATCGCAACGACAACTGTTGACT
**
1560245 ATCGCAACG--AA-T-TTGAAAA
1 ATCGCAACGACAACTGTTG-ACT
*
1560264 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTTGACT
1560286 ATCGCAACG
1 ATCGCAACG
1560295 CGAACTGGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.08
19 11 0.28
20 2 0.05
21 2 0.05
22 20 0.50
23 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTTGACT
Found at i:1560287 original size:116 final size:115
Alignment explanation
Indices: 1560085--1560315 Score: 349
Period size: 116 Copynumber: 2.0 Consensus size: 115
1560075 ATCACAACGA
*
1560085 ATTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAACTGGAAAA
1 ATTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAAC-CGAACTGAAAAA
* * *
1560150 TCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCT
65 TCGCAACGCAACTGTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCT
* *
1560201 ATTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTTGACTATCGCAA-CGAATTTGAAAAA
1 ATTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAA-CTGAAAAA
*
1560265 TCGCAACGACAACTGT-AGACTATCGCAACGCGAACTGGAAAATCGCAACGC
65 TCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGC
1560316 GAAATGGAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
114 4 0.04
115 15 0.14
116 86 0.82
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (115 bp):
ATTTTCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAACTGAAAAAT
CGCAACGCAACTGTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCT
Found at i:1560352 original size:21 final size:21
Alignment explanation
Indices: 1560326--1560421 Score: 165
Period size: 21 Copynumber: 4.6 Consensus size: 21
1560316 GAAATGGAAA
1560326 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
1560347 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
1560368 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
1560389 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAACT
* *
1560410 ATTGTAACGCGA
1 ATCGCAACGCGA
1560422 ATTTACGATA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:1564412 original size:39 final size:39
Alignment explanation
Indices: 1564367--1564449 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 39
1564357 CCTTAAAATC
*
1564367 CTAAATTCTAAACCATGAA-CCTATACTATCCTCAT-ACTT
1 CTAAATTCTAAACCATAAACCCTATA-TA-CCTCATAACTT
* *
1564406 CTAAATTCTAAACCCTAAACCCTATATAGCTCATAACTT
1 CTAAATTCTAAACCATAAACCCTATATACCTCATAACTT
1564445 CTAAA
1 CTAAA
1564450 CCATAACCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
38 5 0.13
39 28 0.72
40 6 0.15
ACGTcount: A:0.39, C:0.28, G:0.02, T:0.31
Consensus pattern (39 bp):
CTAAATTCTAAACCATAAACCCTATATACCTCATAACTT
Found at i:1576958 original size:21 final size:21
Alignment explanation
Indices: 1576927--1576982 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1576917 CTAAATTGGT
* *
1576927 AACTCCCATGTTAGTATCGTG
1 AACTGCCATGTTAGCATCGTG
*
1576948 CACTGCCATGTTAGCATCGTG
1 AACTGCCATGTTAGCATCGTG
*
1576969 AACTGCCACGTTAG
1 AACTGCCATGTTAG
1576983 GACTGTAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (21 bp):
AACTGCCATGTTAGCATCGTG
Found at i:1577445 original size:27 final size:27
Alignment explanation
Indices: 1577410--1577462 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1577400 TTTCTATCGA
*
1577410 TTTTATTATTATTAGGTGTTTTACCGG
1 TTTTATTATTATTAGGTATTTTACCGG
* *
1577437 TTTTGTTATTATTTGGTATTTTACCG
1 TTTTATTATTATTAGGTATTTTACCG
1577463 AAAATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.58
Consensus pattern (27 bp):
TTTTATTATTATTAGGTATTTTACCGG
Found at i:1578084 original size:27 final size:26
Alignment explanation
Indices: 1578032--1578086 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1578022 ATTAAAATAA
* *
1578032 AAAAAATTAAAGTTAAGTAATTAAAT
1 AAAAAATTAAAATTAAGTAATAAAAT
* *
1578058 AAAAAATTAAAATTCAATTACTAAAAT
1 AAAAAATTAAAATT-AAGTAATAAAAT
1578085 AA
1 AA
1578087 GAGTAAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAAAATTAAAATTAAGTAATAAAAT
Found at i:1580237 original size:21 final size:21
Alignment explanation
Indices: 1580213--1580257 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1580203 TAATTTTTAA
1580213 AAAATCAAATCAAAT-TAAATT
1 AAAATC-AATCAAATATAAATT
**
1580234 AAAATCCTTCAAATATAAATT
1 AAAATCAATCAAATATAAATT
1580255 AAA
1 AAA
1580258 TTACCATCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATCAATCAAATATAAATT
Found at i:1580343 original size:2 final size:2
Alignment explanation
Indices: 1580336--1580367 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1580326 AGACTAGAGA
1580336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1580368 TCAAATAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1589921 original size:21 final size:21
Alignment explanation
Indices: 1589874--1589922 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1589864 GGTGGTGGAG
* *
1589874 GTGAATGTGGTGGCGGGGGTG
1 GTGAATGTGGTGGAGGGGGTA
* *
1589895 GAGAATGTGGTGGAGGTGGTA
1 GTGAATGTGGTGGAGGGGGTA
1589916 GTGAATG
1 GTGAATG
1589923 ATGTGGCAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.02, G:0.55, T:0.24
Consensus pattern (21 bp):
GTGAATGTGGTGGAGGGGGTA
Found at i:1593452 original size:2 final size:2
Alignment explanation
Indices: 1593445--1593531 Score: 61
Period size: 2 Copynumber: 49.0 Consensus size: 2
1593435 CCGCCCCGAT
*
1593445 TA TA TA TA TA TA TA TA TA -A TA T- TT TA TA T- TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1593482 TA TA TA TA TA TA TA -A TA AA TA T- TT TA TA TA T- TT TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1593520 TA -A T- TA TA TA TA
1 TA TA TA TA TA TA TA
1593532 AAATATTTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
1 11 0.16
2 58 0.84
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1593495 original size:37 final size:35
Alignment explanation
Indices: 1593445--1593540 Score: 117
Period size: 37 Copynumber: 2.7 Consensus size: 35
1593435 CCGCCCCGAT
1593445 TATATATATATATATATAATATTTTATATTAATTATA
1 TATATATATATATATATAATATTTTATA-T-ATTATA
*
1593482 TATATATATATATA-ATAAATATTTTATATATTTTA
1 TATATATATATATATAT-AATATTTTATATATTATA
*
1593517 TAT-TA-ATTATATATAAAATATTTT
1 TATATATA-TATATATATAATATTTT
1593541 CAGGTTCGGG
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
33 1 0.02
34 16 0.30
35 9 0.17
36 3 0.06
37 25 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (35 bp):
TATATATATATATATATAATATTTTATATATTATA
Found at i:1595936 original size:36 final size:35
Alignment explanation
Indices: 1595891--1595958 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
1595881 TACTATATTA
*
1595891 TAATCCCCATTTTACGCATTATATTATTATTTTTAT
1 TAATCCCCATTTTACGCATTAAATTATT-TTTTTAT
* * *
1595927 TAATTCCCATTTTACTCGTTAAATTATTTTTT
1 TAATCCCCATTTTACGCATTAAATTATTTTTT
1595959 ATAAATTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.14
36 24 0.86
ACGTcount: A:0.26, C:0.16, G:0.03, T:0.54
Consensus pattern (35 bp):
TAATCCCCATTTTACGCATTAAATTATTTTTTTAT
Found at i:1599574 original size:20 final size:20
Alignment explanation
Indices: 1599529--1599573 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
1599519 TTTTATTTAA
1599529 ATATAATATTTTTTAAAAAT
1 ATATAATATTTTTTAAAAAT
1599549 ATATAA-ATTTTTT-AAAAT
1 ATATAATATTTTTTAAAAAT
1599567 -TATAATA
1 ATATAATA
1599574 ACGACACGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.21
18 6 0.25
19 7 0.29
20 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATAATATTTTTTAAAAAT
Found at i:1600064 original size:12 final size:12
Alignment explanation
Indices: 1600047--1600071 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1600037 ATATTTCTGA
1600047 TAAAATATTATT
1 TAAAATATTATT
1600059 TAAAATATTATT
1 TAAAATATTATT
1600071 T
1 T
1600072 TTTAATCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATATTATT
Found at i:1611740 original size:30 final size:30
Alignment explanation
Indices: 1611682--1611745 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
1611672 AGTGACTTGG
* *
1611682 TTGTTATAATCAAGAAATAGAGTGACCTGA
1 TTGTTACAATCAAGAAATAGAGTAACCTGA
* * * *
1611712 TTGTTACAATCGATAAATGGAGTAACCTGT
1 TTGTTACAATCAAGAAATAGAGTAACCTGA
1611742 TTGT
1 TTGT
1611746 CACTGAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (30 bp):
TTGTTACAATCAAGAAATAGAGTAACCTGA
Found at i:1614468 original size:153 final size:153
Alignment explanation
Indices: 1614186--1614482 Score: 463
Period size: 153 Copynumber: 1.9 Consensus size: 153
1614176 TCTTCCATTT
* *
1614186 GCATCCTTGATGCAAGAAGAATCAAGCCATCCAAATTTGCTAGCAACATCAGTACCATTCTGATT
1 GCATCCTTGATGCAAGAAGAATCAAGCCATCCAAATTTCCTAGCAACATCAGTACCATTCTGATG
* *
1614251 ATTACTGTTCCGAACAATAGATTCCTGGAGAAGCTTTACTCTTTTACTGGAGTCTAATAAAGAAC
66 ATTACTGTTCCGAACAATAGATTCCTGGAGAAGCTTTACTCTTTTACCGGAATCTAATAAAGAAC
*
1614316 TATCCTTTTTATCCGCACTATTA
131 TATCCTTCTTATCCGCACTATTA
* * *
1614339 GCATCCTTGATGCAAGAAGGATCAAGCCATCCAAATTTCCTAGCAGCATCAGTATCATTCCT-AT
1 GCATCCTTGATGCAAGAAGAATCAAGCCATCCAAATTTCCTAGCAACATCAGTACCATT-CTGAT
* * *
1614403 GATTATTGTTCCCG-ACAATAGATTCCTGGATAAGCTTTACTCTTTTACCGGAATCTAATACAGA
65 GATTACTGTT-CCGAACAATAGATTCCTGGAGAAGCTTTACTCTTTTACCGGAATCTAATAAAGA
1614467 ACTATCCTTCTTATCC
129 ACTATCCTTCTTATCC
1614483 CCAAACTTAG
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
153 126 0.96
154 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (153 bp):
GCATCCTTGATGCAAGAAGAATCAAGCCATCCAAATTTCCTAGCAACATCAGTACCATTCTGATG
ATTACTGTTCCGAACAATAGATTCCTGGAGAAGCTTTACTCTTTTACCGGAATCTAATAAAGAAC
TATCCTTCTTATCCGCACTATTA
Found at i:1617261 original size:31 final size:32
Alignment explanation
Indices: 1617190--1617250 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
1617180 TAAAATAAAT
1617190 TATATATTTAAT-ACATAAACTATTAATTTTAA
1 TATAT-TTTAATAACATAAACTATTAATTTTAA
*
1617222 TATATTTTAATAAC-TAAACTTTTAATTTT
1 TATATTTTAATAACATAAACTATTAATTTT
1617251 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (32 bp):
TATATTTTAATAACATAAACTATTAATTTTAA
Found at i:1623719 original size:38 final size:38
Alignment explanation
Indices: 1623664--1623739 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
1623654 TTCAAATTCG
1623664 AACCTATTCAATCGTTATTAAACTGTTTACCACTTAGA
1 AACCTATTCAATCGTTATTAAACTGTTTACCACTTAGA
*
1623702 AACCTATTCAATTGTTATTAAACTGTTTACCACTTAGA
1 AACCTATTCAATCGTTATTAAACTGTTTACCACTTAGA
1623740 TTAATCCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (38 bp):
AACCTATTCAATCGTTATTAAACTGTTTACCACTTAGA
Found at i:1633955 original size:51 final size:51
Alignment explanation
Indices: 1633893--1634024 Score: 219
Period size: 51 Copynumber: 2.6 Consensus size: 51
1633883 TAAAAATTAG
* *
1633893 CACTTAACACATATTTACACCGATGTAAGTGAATGAAATAAAAATGTGTAA
1 CACTTAACACATACTTACACCGATGTAAGTGAATGAAATAAAAAAGTGTAA
* *
1633944 CATTTAACACATACTTACACCGATGTAAGCGAATGAAATAAAAAAGTGTAA
1 CACTTAACACATACTTACACCGATGTAAGTGAATGAAATAAAAAAGTGTAA
*
1633995 CACTTAACACATACTTATACCGATGTAAGT
1 CACTTAACACATACTTACACCGATGTAAGT
1634025 ATATATATCT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.27
Consensus pattern (51 bp):
CACTTAACACATACTTACACCGATGTAAGTGAATGAAATAAAAAAGTGTAA
Found at i:1637574 original size:14 final size:15
Alignment explanation
Indices: 1637403--1637580 Score: 241
Period size: 15 Copynumber: 11.5 Consensus size: 15
1637393 TAATAAGGCT
1637403 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1637418 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
1637433 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
1637448 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
1637463 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
1637478 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
1637493 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
1637508 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
1637523 AATTATTATAAAATATAGA
1 ATTTATT-TTAAA-AT--A
1637542 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
1637560 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
1637574 ATTTATT
1 ATTTATT
1637581 AGTATGGATT
Statistics
Matches: 146, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.08
15 114 0.78
16 4 0.03
17 2 0.01
18 1 0.01
19 1 0.01
20 2 0.01
21 4 0.03
22 6 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1637598 original size:32 final size:32
Alignment explanation
Indices: 1637560--1637761 Score: 167
Period size: 32 Copynumber: 7.2 Consensus size: 32
1637550 TTTTAAAATA
1637560 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1637592 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1637614 ATTTATTTTAAATAATTTATTAGTATCGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1637646 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1637668 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1637700 ATTTATTTT--A-AA---A-TA-TA--GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1637722 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1637754 ATTTATTT
1 ATTTATTT
1637762 GAAAATATGG
Statistics
Matches: 135, Mismatches: 5, Indels: 60
0.68 0.03 0.30
Matches are distributed among these distances:
22 40 0.30
23 8 0.06
24 3 0.02
25 6 0.04
26 7 0.05
28 7 0.05
29 5 0.04
30 3 0.02
31 8 0.06
32 48 0.36
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:1637599 original size:22 final size:22
Alignment explanation
Indices: 1637583--1637625 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1637573 AATTTATTAG
1637583 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1637605 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1637626 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1637617 original size:69 final size:67
Alignment explanation
Indices: 1637478--1637635 Score: 203
Period size: 69 Copynumber: 2.3 Consensus size: 67
1637468 TTATAAAATA
1637478 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATAGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATAGAT
1637543 TG
66 TG
* ** * * * * *
1637545 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT--T-TAAAATAAATTATTATAAAATATA
1637609 GATTG
63 GATTG
1637614 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
1637636 GTATCGATTG
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
66 13 0.16
67 22 0.28
68 13 0.16
69 31 0.39
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATAGAT
TG
Found at i:1637625 original size:54 final size:54
Alignment explanation
Indices: 1637560--1638337 Score: 501
Period size: 54 Copynumber: 14.4 Consensus size: 54
1637550 TTTTAAAATA
1637560 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1637614 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
1637668 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
1637722 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTGAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
1637776 ATTTA--TT--AT--TGTAGTT-TTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * *** *
1637820 ATTTGTATTGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATTGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
1637882 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
1637936 ATTTA--TT--AT--TGTAGTT-GTATGGATTAATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * **
1637980 ATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
* * ** * * * *
1638039 TATTGA-TTGATTTATTTTA-AAATATGAATTGATTTATTTTAAATAATTTATTAGTATAGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G----GATTG
*
1638102 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
1638156 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * *** *
1638205 TATCGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
1638262 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1638316 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
1638338 TTGTAGTTGT
Statistics
Matches: 567, Mismatches: 91, Indels: 132
0.72 0.12 0.17
Matches are distributed among these distances:
44 14 0.02
46 3 0.01
47 14 0.02
48 69 0.12
49 7 0.01
50 15 0.03
51 5 0.01
52 6 0.01
53 1 0.00
54 279 0.49
55 10 0.02
56 12 0.02
57 16 0.03
58 39 0.07
59 15 0.03
60 7 0.01
62 23 0.04
63 12 0.02
64 20 0.04
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:1637757 original size:18 final size:19
Alignment explanation
Indices: 1637736--1637782 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
1637726 ATTTTAAATA
1637736 ATTTATTTG-TATGGATTG
1 ATTTATTTGATATGGATTG
1637754 ATTTATTTGAAAATATGGATTG
1 ATTTATTTG---ATATGGATTG
1637776 ATTTATT
1 ATTTATT
1637783 ATTGTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.36
22 16 0.64
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (19 bp):
ATTTATTTGATATGGATTG
Found at i:1637813 original size:80 final size:80
Alignment explanation
Indices: 1637560--1638022 Score: 548
Period size: 80 Copynumber: 5.8 Consensus size: 80
1637550 TTTTAAAATA
*
1637560 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
* *
1637625 ATAATTTA-TTAGTATCGATTG
62 AT--TGTAGTT-GTATGGATTG
* * * ** * * * *
1637646 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGAATTGATTTA-T
1 ATTTATTTT-AAATA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
*** *
1637706 -TT-TA-AAATATAGATTG
62 ATTGTAGTTGTATGGATTG
*
1637722 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTGAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
1637787 TAGTTTTATGGATTG
66 TAGTTGTATGGATTG
*
1637802 ATTTATTTTAAATAATTTATTTGTATTGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
1637867 TAGTTGTATTGATTG
66 TAGTTGTATGGATTG
* *
1637882 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
1637947 TAGTTGTATGGATTA
66 TAGTTGTATGGATTG
*
1637962 ATTTATTTTAAATAATTTATTTGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1638023 TTAAATAATT
Statistics
Matches: 326, Mismatches: 39, Indels: 30
0.83 0.10 0.08
Matches are distributed among these distances:
72 16 0.05
74 1 0.00
75 5 0.02
76 31 0.10
77 3 0.01
78 3 0.01
79 2 0.01
80 219 0.67
83 1 0.00
86 23 0.07
87 5 0.02
88 2 0.01
90 15 0.05
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TAGTTGTATGGATTG
Found at i:1637841 original size:22 final size:22
Alignment explanation
Indices: 1637816--1637889 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
1637806 ATTTTAAATA
1637816 ATTTATTTGTATTGATTGATTT
1 ATTTATTTGTATTGATTGATTT
* * *
1637838 ATTTTAAAATATGGATTGATTTA-TT
1 A-TTT---ATTTGTATTGATTGATTT
*
1637863 ATTGTAGTTGTATTGATTGATTT
1 ATT-TATTTGTATTGATTGATTT
1637886 ATTT
1 ATTT
1637890 TAAATAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
22 13 0.33
23 8 0.21
24 2 0.05
25 4 0.10
26 12 0.31
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (22 bp):
ATTTATTTGTATTGATTGATTT
Found at i:1637998 original size:32 final size:32
Alignment explanation
Indices: 1637950--1638145 Score: 142
Period size: 32 Copynumber: 5.8 Consensus size: 32
1637940 ATTATTGTAG
* *
1637950 TTGTATGGATTAATTTATTTTAAATAATTTAT
1 TTGTATGAATTGATTTATTTTAAATAATTTAT
*
1637982 TTGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TTGTATGAATTGATTTATTTT-AAATA---ATTTAT
* * * * * * * *
1638018 TTATTTTAAATAATTTATTAGTATTGATTGATTTATT
1 TTGTATGAATTGATTTA-T--T-TTAAATAATTTA-T
*
1638055 TTAAAATATGAATTGATTTATTTTAAATAATTTAT
1 TT---GTATGAATTGATTTATTTTAAATAATTTAT
*
1638090 TAGTAT-AGATTGATTTATTTTAAATAATTTAT
1 TTGTATGA-ATTGATTTATTTTAAATAATTTAT
*
1638122 TTGTATGGATTGATTTATTTTAAA
1 TTGTATGAATTGATTTATTTTAAA
1638146 ATATGGATTG
Statistics
Matches: 127, Mismatches: 23, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
31 1 0.01
32 67 0.53
33 5 0.04
35 2 0.02
36 30 0.24
37 5 0.04
39 4 0.03
40 13 0.10
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
TTGTATGAATTGATTTATTTTAAATAATTTAT
Found at i:1638010 original size:22 final size:22
Alignment explanation
Indices: 1637985--1638081 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 22
1637975 AATTTATTTG
1637985 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
1638007 TATGGATTGATTTATTTTAAATAA
1 TATGAATTGATTTATTTT-AA-AA
* *
1638031 TTTATTAGTATTGATTGATTTATTTTAAAA
1 --TA-T-GAATTGATTTA-TT---TTAAAA
1638061 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1638082 TAATTTATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
22 22 0.37
23 2 0.03
24 2 0.03
25 2 0.03
26 11 0.18
27 2 0.03
28 11 0.18
29 2 0.03
30 2 0.03
31 2 0.03
32 2 0.03
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1638089 original size:14 final size:14
Alignment explanation
Indices: 1638070--1638123 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
1638060 ATATGAATTG
1638070 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
1638084 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
1638102 ATTTATTTTAAATA
1 ATTTATTTTAAATA
1638116 ATTTATTT
1 ATTTATTT
1638124 GTATGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:1638215 original size:80 final size:80
Alignment explanation
Indices: 1638007--1638322 Score: 490
Period size: 80 Copynumber: 3.9 Consensus size: 80
1637997 TATTTTAAAA
* *
1638007 TATGGATTGATTTATTTTAAATAATTTATTAGTATTGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1638072 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
* *
1638093 TATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1638158 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
1638173 TATGGATTGATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1638238 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
* *
1638253 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1638318 TTATT
66 TTATT
1638323 TTAAATAATT
Statistics
Matches: 218, Mismatches: 11, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
80 148 0.68
81 2 0.01
82 2 0.01
84 2 0.01
86 64 0.29
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:1638387 original size:30 final size:30
Alignment explanation
Indices: 1638351--1638407 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1638341 TAGTTGTATG
* *
1638351 AATTATTTAAATTTCAGTATTGTAAAATAA
1 AATTATTTAAATATCAGTATTGCAAAATAA
1638381 AATTATTTAAATATCAGTATTGCAAAA
1 AATTATTTAAATATCAGTATTGCAAAA
1638408 CTCTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (30 bp):
AATTATTTAAATATCAGTATTGCAAAATAA
Found at i:1642196 original size:19 final size:20
Alignment explanation
Indices: 1642172--1642224 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
1642162 GTGGTCTCTA
1642172 AAAATTTCTAA-ATTTTTAT
1 AAAATTTCTAATATTTTTAT
*
1642191 AAAATTT-AAATATTTTTAT
1 AAAATTTCTAATATTTTTAT
* *
1642210 ACATTTTCTAATATT
1 AAAATTTCTAATATT
1642225 AATTTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 2 0.07
19 20 0.71
20 6 0.21
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAATTTCTAATATTTTTAT
Found at i:1642244 original size:25 final size:25
Alignment explanation
Indices: 1642209--1642279 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
1642199 AATATTTTTA
*
1642209 TACATTTTCTAATATTAATT-TAATTT
1 TACACTTTCTAATATT--TTATAATTT
* *
1642235 TTCA-TTTCTAAAATTTTATAATTT
1 TACACTTTCTAATATTTTATAATTT
1642259 TACACTTTCTAAT-TTCTTATA
1 TACACTTTCTAATATT-TTATA
1642280 TAAATTCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.05
24 11 0.29
25 22 0.58
26 3 0.08
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.56
Consensus pattern (25 bp):
TACACTTTCTAATATTTTATAATTT
Found at i:1642736 original size:21 final size:21
Alignment explanation
Indices: 1642707--1642762 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1642697 ACTGTCATGT
*
1642707 CAATATCGTAAATTGTTACGA
1 CAATATCGTAAATTGTCACGA
*
1642728 CAGTATCGTAAATTGTCACGA
1 CAATATCGTAAATTGTCACGA
1642749 CAATATCGTAAATT
1 CAATATCGTAAATT
1642763 ACAACATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (21 bp):
CAATATCGTAAATTGTCACGA
Found at i:1659644 original size:19 final size:18
Alignment explanation
Indices: 1659600--1659640 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1659590 TATAAAAAAC
1659600 ACTTTAATAAAGTACTCT
1 ACTTTAATAAAGTACTCT
*
1659618 ACTTTAATAAAGTTCTCT
1 ACTTTAATAAAGTACTCT
1659636 ACTTT
1 ACTTT
1659641 TAATCAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (18 bp):
ACTTTAATAAAGTACTCT
Found at i:1661640 original size:15 final size:15
Alignment explanation
Indices: 1661621--1661674 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
1661611 AACTAAATAA
*
1661621 AATAAAAAGTTACTTT
1 AATAAAAA-CTACTTT
1661637 -ATAAAAACTACTTT
1 AATAAAAACTACTTT
1661651 AATAAAATACTATACTTT
1 AATAAAA-AC--TACTTT
1661669 AATAAA
1 AATAAA
1661675 GTTCTCTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.18
15 13 0.39
16 2 0.06
18 12 0.36
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (15 bp):
AATAAAAACTACTTT
Found at i:1661648 original size:14 final size:16
Alignment explanation
Indices: 1661631--1661674 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
1661621 AATAAAAAGT
1661631 TACTTT-ATAAAA-AC
1 TACTTTAATAAAATAC
1661645 TACTTTAATAAAATAC
1 TACTTTAATAAAATAC
1661661 TATACTTTAATAAA
1 --TACTTTAATAAA
1661675 GTTCTCTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.23
15 6 0.23
16 2 0.08
18 12 0.46
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (16 bp):
TACTTTAATAAAATAC
Found at i:1661684 original size:18 final size:18
Alignment explanation
Indices: 1661644--1661686 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1661634 TTTATAAAAA
1661644 CTACTTTAATAAAATACT
1 CTACTTTAATAAAATACT
* * *
1661662 ATACTTTAATAAAGTTCT
1 CTACTTTAATAAAATACT
1661680 CTACTTT
1 CTACTTT
1661687 TAATCAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (18 bp):
CTACTTTAATAAAATACT
Found at i:1669050 original size:26 final size:25
Alignment explanation
Indices: 1669003--1669051 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
1668993 ACTGCTAAGA
**
1669003 GAAATCGAAGAAAACGGGATCGGAG
1 GAAATCGAAGAAAACGAAATCGGAG
*
1669028 GAAAGTCGAAGAAATCGAAATCGG
1 GAAA-TCGAAGAAAACGAAATCGG
1669052 TACATATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.45, C:0.12, G:0.33, T:0.10
Consensus pattern (25 bp):
GAAATCGAAGAAAACGAAATCGGAG
Found at i:1675260 original size:77 final size:77
Alignment explanation
Indices: 1675132--1675345 Score: 340
Period size: 77 Copynumber: 2.8 Consensus size: 77
1675122 AAAACCAACA
* * *
1675132 AAGACAATGCACTTGATAATGGCAGAAAGTGAGGACTTTCCTCTGCAATAATTAACACCAGGAAT
1 AAGACAATGCACTTGATAATGGAAGAAAGTGAGGACTTTCCTCTACAATAATTAACACCACGAAT
1675197 AGCAAAGAAAAT
66 AGCAAAGAAAAT
**
1675209 AAGACAATGCACTTGATAATGGAAGAAAGTGAGGACTTTCCTCTATGATAATTAACACCACGAAT
1 AAGACAATGCACTTGATAATGGAAGAAAGTGAGGACTTTCCTCTACAATAATTAACACCACGAAT
* *
1675274 AGTAAAGAAATT
66 AGCAAAGAAAAT
*
1675286 AAGACAATGCACTTGATAAT-GACAGAAAGTGAGGACTTCCCTCTACAATAATTAACACCA
1 AAGACAATGCACTTGATAATGGA-AGAAAGTGAGGACTTTCCTCTACAATAATTAACACCA
1675346 TTATTTAATT
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
76 2 0.02
77 124 0.98
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (77 bp):
AAGACAATGCACTTGATAATGGAAGAAAGTGAGGACTTTCCTCTACAATAATTAACACCACGAAT
AGCAAAGAAAAT
Found at i:1675657 original size:19 final size:19
Alignment explanation
Indices: 1675614--1675657 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1675604 AAATAACCAA
**
1675614 CAAATTCGCAACACGATTT
1 CAAATTCGCAACACGAACT
1675633 CAAATTCGCAACACGAACT
1 CAAATTCGCAACACGAACT
*
1675652 CTAATT
1 CAAATT
1675658 TCTCAACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (19 bp):
CAAATTCGCAACACGAACT
Found at i:1675843 original size:14 final size:14
Alignment explanation
Indices: 1675820--1675849 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1675810 TAGGTAAACA
*
1675820 CGGTAGAAAAAATC
1 CGGTAAAAAAAATC
1675834 CGGTAAAAAAAATC
1 CGGTAAAAAAAATC
1675848 CG
1 CG
1675850 AATTTGCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (14 bp):
CGGTAAAAAAAATC
Found at i:1676254 original size:13 final size:14
Alignment explanation
Indices: 1676236--1676264 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1676226 CTATATCGAT
1676236 AATTTA-GTTGCGA
1 AATTTACGTTGCGA
1676249 AATTTACGTTGCGA
1 AATTTACGTTGCGA
1676263 AA
1 AA
1676265 ATTTTCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (14 bp):
AATTTACGTTGCGA
Found at i:1677793 original size:15 final size:15
Alignment explanation
Indices: 1677773--1677811 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
1677763 AAAAAAATTC
1677773 GGGTCGGGTCAGGGA
1 GGGTCGGGTCAGGGA
*
1677788 GGGTCGGGTCAGTGA
1 GGGTCGGGTCAGGGA
1677803 GGGTCGGGT
1 GGGTCGGGT
1677812 TTTTTTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.10, C:0.13, G:0.59, T:0.18
Consensus pattern (15 bp):
GGGTCGGGTCAGGGA
Found at i:1682836 original size:19 final size:18
Alignment explanation
Indices: 1682796--1682848 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
1682786 ATAAATAATA
* *
1682796 AATATAAATATTAT-TTT
1 AATAAAAATATAATATTT
1682813 AATAAAAATATAATATTT
1 AATAAAAATATAATATTT
*
1682831 ACATAAATATATTAATAT
1 A-ATAAAAATA-TAATAT
1682849 AAAATATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 12 0.40
18 4 0.13
19 8 0.27
20 6 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAAAAATATAATATTT
Found at i:1682839 original size:23 final size:23
Alignment explanation
Indices: 1682768--1682839 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 23
1682758 ATAATGAACA
1682768 AAAAAT-TAATAATTCTAAATAAAT
1 AAAAATATAAT-ATT-TAAATAAAT
** *
1682792 AATAAATATAA-ATATTATTTTAAT
1 AA-AAATATAATAT-TTAAATAAAT
*
1682816 AAAAATATAATATTTACATAAAT
1 AAAAATATAATATTTAAATAAAT
1682839 A
1 A
1682840 TATTAATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
23 16 0.42
24 14 0.37
25 5 0.13
26 3 0.08
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATATAATATTTAAATAAAT
Found at i:1683155 original size:51 final size:50
Alignment explanation
Indices: 1683054--1683156 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 50
1683044 CATTTAATGG
* * * * *
1683054 AAGGCGCGTCCCCGGGATGCGCTTTCCACACGTGGCAGTCGAGCTGGCGA
1 AAGGCGCGTCCCCGGGATGCGCCTTCCACACGTGACAGTCCAACTAGCGA
*
1683104 AAGGCGCGTCCTCGGGGATGCGCCTTCCACACGTGACA-TCCAACTCAGCGA
1 AAGGCGCGTCC-CCGGGATGCGCCTTCCACACGTGACAGTCCAACT-AGCGA
1683155 AA
1 AA
1683157 ACACGGGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 16 0.36
51 29 0.64
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.16
Consensus pattern (50 bp):
AAGGCGCGTCCCCGGGATGCGCCTTCCACACGTGACAGTCCAACTAGCGA
Found at i:1684429 original size:29 final size:30
Alignment explanation
Indices: 1684351--1684440 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 30
1684341 TTATAGTGTC
*
1684351 AATTATTTTTAATATTTATTATTAAG-GATT
1 AATT-TTTTTAATATTTATTATTAAGAGCTT
* * *
1684381 CAATTTTCTCTCAATTTTTATTATTATGAGCTT
1 -AATTTT-T-TTAATATTTATTATTAAGAGCTT
*
1684414 -ATTTTTTTAATATTTATTGTTAAGAGC
1 AATTTTTTTAATATTTATTATTAAGAGC
1684441 ATACTTTTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
29 17 0.35
30 3 0.06
31 10 0.21
32 15 0.31
33 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.56
Consensus pattern (30 bp):
AATTTTTTTAATATTTATTATTAAGAGCTT
Found at i:1684448 original size:29 final size:29
Alignment explanation
Indices: 1684397--1684453 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
1684387 TCTCTCAATT
* * * *
1684397 TTTATTATTATGAGCTTATTTTTTTAATA
1 TTTATTATTAAGAGCATACTTTTATAATA
*
1684426 TTTATTGTTAAGAGCATACTTTTATAAT
1 TTTATTATTAAGAGCATACTTTTATAAT
1684454 TTTTTTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (29 bp):
TTTATTATTAAGAGCATACTTTTATAATA
Found at i:1684650 original size:30 final size:29
Alignment explanation
Indices: 1684616--1684691 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
1684606 TTCTAATATT
* * *
1684616 TATTTGTTATTATGAGTCTAATTTTTTTAG
1 TATTTCTTATTATGAGTCT-ATTTTTTCAA
* *
1684646 TATTTTTTATTA-CATGTCTATTTTTTCAA
1 TATTTCTTATTATGA-GTCTATTTTTTCAA
*
1684675 TTTTTCTTATTATGAGT
1 TATTTCTTATTATGAGT
1684692 GTACCCTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (29 bp):
TATTTCTTATTATGAGTCTATTTTTTCAA
Found at i:1685434 original size:39 final size:43
Alignment explanation
Indices: 1685357--1685453 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 43
1685347 AAATAATTGG
*
1685357 TATTAATTTATTAATAAATAATAAAAATAATAAGTTAATTAAT-C
1 TATT-ATTT-TTAATAAATAATAAAAATAATAAGTTAATTAATAA
* *
1685401 TATTATTTTTAATAAATAGT-AAAAT-ATTA-TTAATTAATAA
1 TATTATTTTTAATAAATAATAAAAATAATAAGTTAATTAATAA
1685441 TATTA-TTTTAATA
1 TATTATTTTTAATA
1685454 CAAAAAAACC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
39 17 0.35
40 8 0.16
41 5 0.10
42 11 0.22
43 4 0.08
44 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (43 bp):
TATTATTTTTAATAAATAATAAAAATAATAAGTTAATTAATAA
Found at i:1691681 original size:36 final size:35
Alignment explanation
Indices: 1691614--1691690 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 35
1691604 AAAACTTAGC
* *
1691614 GTTAAATTTTGAATCGGTACTAAAATTAAACATAA
1 GTTAAATTTTGAATCGGTACTAAAATAAAACAAAA
* * *
1691649 GTTAAAGTTTTTAATGGGTGCTAAAATAAAACAAAA
1 GTTAAA-TTTTGAATCGGTACTAAAATAAAACAAAA
*
1691685 ATTAAA
1 GTTAAA
1691691 ATTTAAGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
35 6 0.17
36 29 0.83
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.32
Consensus pattern (35 bp):
GTTAAATTTTGAATCGGTACTAAAATAAAACAAAA
Found at i:1693302 original size:16 final size:18
Alignment explanation
Indices: 1693281--1693326 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1693271 GAGCCTCAGG
1693281 GGTGACACTT-T-TGAGT
1 GGTGACACTTGTATGAGT
*
1693297 GGTGACACTTGTATTAGT
1 GGTGACACTTGTATGAGT
1693315 GGTGACACTTGT
1 GGTGACACTTGT
1693327 GGAGGGGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 10 0.37
17 1 0.04
18 16 0.59
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.37
Consensus pattern (18 bp):
GGTGACACTTGTATGAGT
Found at i:1693382 original size:49 final size:49
Alignment explanation
Indices: 1693328--1693422 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
1693318 GACACTTGTG
** *
1693328 GAGGGGTTGCTTGAGATACCCCGGGCACCATGGAGGTCTGCCCCTGGAT
1 GAGGGGTTGCCCGAGATACCCCGGGCACCATGGAGGTCCGCCCCTGGAT
*
1693377 GAGGGGTTGCCCGGGATACCCCGGGCACCATGGAGGTCCGCCCCTG
1 GAGGGGTTGCCCGAGATACCCCGGGCACCATGGAGGTCCGCCCCTG
1693423 ATTGTTCGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.17
Consensus pattern (49 bp):
GAGGGGTTGCCCGAGATACCCCGGGCACCATGGAGGTCCGCCCCTGGAT
Found at i:1694035 original size:57 final size:57
Alignment explanation
Indices: 1693928--1694036 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
1693918 ATAGGCGTTA
* * *
1693928 TTTTGTTAGGTCGCTCGACTATTAAAAATTATAAAATAGTTCCCTAACTATGGAACG
1 TTTTGTTAAGTCGCTCGACTATTAAAAATTACAAAATAGTTACCTAACTATGGAACG
* * * *
1693985 TTTTGTTAAGTCGCTCGACTATTAAAAGTTACAAAATGGTTATCTGACTATG
1 TTTTGTTAAGTCGCTCGACTATTAAAAATTACAAAATAGTTACCTAACTATG
1694037 CATATGTTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (57 bp):
TTTTGTTAAGTCGCTCGACTATTAAAAATTACAAAATAGTTACCTAACTATGGAACG
Found at i:1698177 original size:2 final size:2
Alignment explanation
Indices: 1698170--1698210 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1698160 CTTGTTTAGA
1698170 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1698211 ATAATAATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1698566 original size:28 final size:27
Alignment explanation
Indices: 1698520--1698662 Score: 76
Period size: 30 Copynumber: 4.9 Consensus size: 27
1698510 AAAGAGAAAG
*
1698520 TAAAAAAATATATTAATAATA-AAATA
1 TAAAAAAATATAATAATAATATAAATA
1698546 TAAAAAAATATACATATATAATATAAATAA
1 TAAAAAAATATA-ATA-ATAATATAAAT-A
* * *
1698576 GTAGAATAAAA-AGAAAATATAATAGTAAAAA
1 -TA-AA-AAAATATAATA-ATAATA-TAAATA
* *
1698607 TAATAATAAATATAATAGTAATAATAAAAA
1 TAA-AA-AAATATAATAATAAT-ATAAATA
1698637 TGCAAAAAAATA-AATATATATATATA
1 T--AAAAAAATATAATA-ATA-ATATA
1698663 TATTGGTAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
26 12 0.13
27 2 0.02
28 6 0.06
29 10 0.11
30 28 0.30
31 21 0.23
32 10 0.11
33 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (27 bp):
TAAAAAAATATAATAATAATATAAATA
Found at i:1698611 original size:12 final size:12
Alignment explanation
Indices: 1698589--1698633 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
1698579 GAATAAAAAG
1698589 AAAATATAATAGT
1 AAAA-ATAATAGT
*
1698602 AAAAATAATAAT
1 AAAAATAATAGT
*
1698614 AAATATAATAGT
1 AAAAATAATAGT
*
1698626 AATAATAA
1 AAAAATAA
1698634 AAATGCAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:1699246 original size:37 final size:37
Alignment explanation
Indices: 1699205--1699301 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
1699195 GGATCCTATC
* *
1699205 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCTTAGTAGAACTCTATCATATT
* * * *
1699242 TTTAGGAGTTTGAATCTTAGCAAAATTCTATCTTATT
1 TTTAGGAGTTTGAATCTTAGTAGAACTCTATCATATT
1699279 TTTAGGAGTTTGAATCTTAGTAG
1 TTTAGGAGTTTGAATCTTAGTAG
1699302 TACGAAAAGG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCTTAGTAGAACTCTATCATATT
Found at i:1708587 original size:19 final size:19
Alignment explanation
Indices: 1708563--1708599 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1708553 ATGACCAACA
*
1708563 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
1708582 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
1708600 CAGTATCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:1708709 original size:78 final size:79
Alignment explanation
Indices: 1708565--1708733 Score: 270
Period size: 78 Copynumber: 2.2 Consensus size: 79
1708555 GACCAACAAA
*
1708565 ATCGCAATGCG-ATCTCTAAATCGCAACGCGATCTCCAGTATCACAAATCAGTTTCCAGATTCGC
1 ATCGCAATGCGAATATCTAAATCGCAACGCGATCTCCAG-ATCACAAATCAGTTTCCAGATTCGC
1708629 AACGCGATTTTGACT
65 AACGCGATTTTGACT
* * *
1708644 ATCGCAATGCGAATATGTAAATCGCAACGCGATCTCCAG-TCGCAAATCAGTTTCCATATTCGCA
1 ATCGCAATGCGAATATCTAAATCGCAACGCGATCTCCAGATCACAAATCAGTTTCCAGATTCGCA
1708708 ACGCGATTTTGACT
66 ACGCGATTTTGACT
*
1708722 ATCGCATTGCGA
1 ATCGCAATGCGA
1708734 TTTTTCAAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
78 48 0.57
79 11 0.13
80 25 0.30
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (79 bp):
ATCGCAATGCGAATATCTAAATCGCAACGCGATCTCCAGATCACAAATCAGTTTCCAGATTCGCA
ACGCGATTTTGACT
Found at i:1708809 original size:21 final size:21
Alignment explanation
Indices: 1708782--1708838 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
1708772 GCGAATATGT
1708782 AAATCGCAACGCGATAATATA
1 AAATCGCAACGCGATAATATA
*
1708803 GAATCGCAACGCGATAATATA
1 AAATCGCAACGCGATAATATA
*
1708824 AAATTGCAACGCGAT
1 AAATCGCAACGCGAT
1708839 TTTCCAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (21 bp):
AAATCGCAACGCGATAATATA
Found at i:1708880 original size:19 final size:20
Alignment explanation
Indices: 1708856--1708895 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1708846 ATTTACGCTA
1708856 GTCCAAATT-CGTTGCGATT
1 GTCCAAATTACGTTGCGATT
*
1708875 GTCCAAGTTCACGTTGCGATT
1 GTCCAAATT-ACGTTGCGATT
1708896 TCTTAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (20 bp):
GTCCAAATTACGTTGCGATT
Found at i:1709299 original size:19 final size:19
Alignment explanation
Indices: 1709275--1709355 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 19
1709265 TTATTTTGGA
*
1709275 TTTTTCACTATCGTAACAC
1 TTTTTCACTATCGCAACAC
1709294 TTTTTCACTATCGCAACAACAC
1 TTTTTCACTATCG---CAACAC
*
1709316 GTTTTTCAAACTCTCGCAACAC
1 -TTTTTC--ACTATCGCAACAC
* *
1709338 ATTTTAACTATCGCAACA
1 TTTTTCACTATCGCAACA
1709356 TATTTTTCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
19 24 0.47
21 4 0.08
22 11 0.22
23 6 0.12
25 6 0.12
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (19 bp):
TTTTTCACTATCGCAACAC
Found at i:1710980 original size:2 final size:2
Alignment explanation
Indices: 1710973--1710997 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1710963 CTTTTTATTT
1710973 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1710998 GTATGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1711002 original size:4 final size:4
Alignment explanation
Indices: 1710995--1711368 Score: 748
Period size: 4 Copynumber: 93.5 Consensus size: 4
1710985 TATATATATA
1710995 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1711043 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1711091 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1711139 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1711187 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1711235 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1711283 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1711331 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1711369 AAAGAATTTT
Statistics
Matches: 370, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 370 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:1715640 original size:106 final size:106
Alignment explanation
Indices: 1715108--1716633 Score: 2360
Period size: 106 Copynumber: 14.5 Consensus size: 106
1715098 CATTGTTCCA
* ** * ** * * *
1715108 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGGTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* * * * *
1715173 CAGCCGTCTCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * ** *
1715214 AGTCCAACATCCTTCGTTATGAAGTTGAAATTGATTCTG-AA-TGA-AA--T-TTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1715273 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
1715314 AGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
1715378 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * **
1715419 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA--AATTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* *
1715482 CAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1715523 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1715588 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1715629 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* *
1715694 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
1715735 AGTCCACTATCCTTCGCTGTGAAGTTGAAATTGACTCT-AGAATTG-GAAAATTGTTTATTGACA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGAG-AAGTTGTTTGTTGACA
1715798 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1715841 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* **
1715906 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1715947 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
1716011 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1716052 AGTCCAATATCCTTCGCTCTGAAGTTGAAATTGGCTCTGAAATTG-GAAAGTTG-TTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGTTGTTTGTTGACAA
1716115 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1716157 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
1716222 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1716263 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
*
1716328 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1716369 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* * *
1716434 CAGCGGTCTCTTCGTTGTGAAGTTGAACATGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1716475 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
* **
1716540 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1716581 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
1716634 ATTGAGGTGT
Statistics
Matches: 1313, Mismatches: 91, Indels: 32
0.91 0.06 0.02
Matches are distributed among these distances:
100 80 0.06
101 2 0.00
102 2 0.00
103 4 0.00
104 98 0.07
105 299 0.23
106 826 0.63
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1716301 original size:634 final size:632
Alignment explanation
Indices: 1715108--1716633 Score: 2544
Period size: 634 Copynumber: 2.4 Consensus size: 632
1715098 CATTGTTCCA
* * ** * * *
1715108 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGGTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAATTGGAAAATTGTTTATTGACAAC
* * * * *
1715173 CAGCCGTCTCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAACATCCTTCGTTATGAAG
65 CAGCGGTCTCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
** *
1715238 TTGAAATTGATTCTG-AA-TGA-AA--T-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* ** * *
1715297 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGA
195 GAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
*
1715362 AGTTGTTGTTGACAAGCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
260 AGTTGTTGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
*
1715427 ATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTTGTTGACAACCAGCGGTCCC
325 ATCCTTCGCTCTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTTGTTGACAACCAGCGGTCCC
*
1715492 TTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGG
390 TTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGA
* *
1715557 CTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGT
455 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGT
* *
1715622 TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGT
520 TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTAT
* * *
1715687 TGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
585 TGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1715735 AGTCCACTATCCTTCGCTGTGAAGTTGAAATTGACTCTAGAATTGGAAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAATTGGAAAATTGTTTATTGACAAC
* *
1715800 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCTCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1715865 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
1715930 GAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
195 GAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
1715995 AGTTGTTGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
260 AGTTGTTGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAAT
*
1716060 ATCCTTCGCTCTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTGTTGACAACCAGCGGTC
325 ATCCTTCGCTCTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-AT-TTGTTGACAACCAGCGGTC
* * *
1716124 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
388 CCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATT
*
1716189 GACTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTAC
453 GACTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTAC
1716254 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTT
518 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTT
1716319 ATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
583 ATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
1716369 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTGGA-AAATTGTTTATTGACAAC
*
1716434 CAGCGGTCTCTTCGTTGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCTCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1716499 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* *
1716564 GAACATGCGTTGTCAAGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
195 GAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
1716629 AGTTG
260 AGTTG
1716634 ATTGAGGTGT
Statistics
Matches: 839, Mismatches: 51, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
627 126 0.15
628 2 0.00
629 3 0.00
630 2 0.00
632 6 0.01
633 202 0.24
634 498 0.59
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (632 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTGGAAAATTGTTTATTGACAACC
AGCGGTCTCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
GTTGTTGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
TCCTTCGCTCTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTTGTTGACAACCAGCGGTCCCT
TCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGAC
TCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTT
GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATT
GACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1722297 original size:120 final size:120
Alignment explanation
Indices: 1722079--1722536 Score: 436
Period size: 120 Copynumber: 3.8 Consensus size: 120
1722069 GTATGATCCG
* * * ** * *
1722079 GATGAAAGTGACGACTTGCCTTCAAACCCCGATGGTGTCACCGGAGGGTGCAGCGAACCGGTTGA
1 GATGAAAGTGCCGACTTGCCTTTAAGCCCCGATGGCATCACCGGAAGGTGCAGCGAACCGGCTGA
* * * * *
1722144 GAAGCAGCTCATCGAAACCGATGTAAATGCAGATAAGCCGATTAGCCCCAAAATC
66 GAAGCAGCTCATTGAAACCGATGTAAATTCAGATGAGTCGATTAGCCCCGAAATC
* * * *
1722199 GATGGAAGTGCCGCCTTGCCTTTAAGCCCCGATGGCCTCACCGGAGGGTGCAGCGAACCGGCTGA
1 GATGAAAGTGCCGACTTGCCTTTAAGCCCCGATGGCATCACCGGAAGGTGCAGCGAACCGGCTGA
*
1722264 GAAGCAGCTCATTGAAACCGATGTAAATTCAGATGAGTCTATTA-CGCCCGAAATC
66 GAAGCAGCTCATTGAAACCGATGTAAATTCAGATGAGTCGATTAGC-CCCGAAATC
* ** * *** * * * *
1722319 GATAAAAGTACTGTTGACTTG-CTTTTAGAATTCGCTGACATCATCGGAAGGTGCAGCGAACCTG
1 GATGAAAG---TGCCGACTTGCCTTTAAG-CCCCGATGGCATCACCGGAAGGTGCAGCGAACCGG
* * * * *
1722383 CTGAGAAGCGGCTCATTGAAACCGTTGTAAATTCAGATGAGTTGATTGGCGCCGAAATC
62 CTGAGAAGCAGCTCATTGAAACCGATGTAAATTCAGATGAGTCGATTAGCCCCGAAATC
* * * * ** **
1722442 GATGGAAGTGCCAAGTTGCCTTTAATCCCCGATGGCATCATTGGAAGGTGCAGCGAACTC-TTTG
1 GATGAAAGTGCCGACTTGCCTTTAAGCCCCGATGGCATCACCGGAAGGTGCAGCGAAC-CGGCTG
* * * *
1722506 GGAAGCAGCTAATTGAAACCGACGTGAATTC
65 AGAAGCAGCTCATTGAAACCGATGTAAATTC
1722537 GAAGCAATGC
Statistics
Matches: 273, Mismatches: 57, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
119 1 0.00
120 169 0.62
121 6 0.02
122 6 0.02
123 90 0.33
124 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (120 bp):
GATGAAAGTGCCGACTTGCCTTTAAGCCCCGATGGCATCACCGGAAGGTGCAGCGAACCGGCTGA
GAAGCAGCTCATTGAAACCGATGTAAATTCAGATGAGTCGATTAGCCCCGAAATC
Found at i:1729258 original size:33 final size:33
Alignment explanation
Indices: 1729213--1729311 Score: 139
Period size: 33 Copynumber: 3.1 Consensus size: 33
1729203 AGTTGGCAAG
* *
1729213 TTGAAAATTTCATCTTGGTTGGTGCCCAACTTA
1 TTGAAAAATTCATCTTGGTTGGTGGCCAACTTA
1729246 TTGAAAAATTCATCTTGGTTGGTGGCCAACTTA
1 TTGAAAAATTCATCTTGGTTGGTGGCCAACTTA
* * *
1729279 TTGGAAAATTC-T-TTAGTAGGTGGCCAACTTA
1 TTGAAAAATTCATCTTGGTTGGTGGCCAACTTA
1729310 TT
1 TT
1729312 TTCATGTTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 19 0.31
32 1 0.02
33 41 0.67
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (33 bp):
TTGAAAAATTCATCTTGGTTGGTGGCCAACTTA
Found at i:1733124 original size:120 final size:120
Alignment explanation
Indices: 1732896--1733207 Score: 421
Period size: 120 Copynumber: 2.6 Consensus size: 120
1732886 AAAATGATGA
* * * *
1732896 CTTGCCTTTAAGCCCCGATGGCGTCACCTGGGGTTGCAGCGAACCGGTTGAGAAGCAGCTCGTTG
1 CTTGCCTGTAACCCCCGATGGCGTCACCTGGGGGTGCAGCGAACCGGTTGAGAAGCAGCTCATTG
1732961 AAACCGATGTAAATTCAGATAAGCCGATTAGCCCCATAATCGATGGAAGTGCCAC
66 AAACCGATGTAAATTCAGATAAGCCGATTAGCCCCATAATCGATGGAAGTGCCAC
* ** *
1733016 CTTTCCTGTAAGTCTCGATGGCGTCACCTGGGGGTGCAGCGAACCGGTTGAGAAGCAGCTCATTG
1 CTTGCCTGTAACCCCCGATGGCGTCACCTGGGGGTGCAGCGAACCGGTTGAGAAGCAGCTCATTG
* * *
1733081 AAACCGATGTAAATTCAGATAAGCCGATTAGCCTCGA-GATCGATGGAAGTGCCGC
66 AAACCGATGTAAATTCAGATAAGCCGATTAGCC-CCATAATCGATGGAAGTGCCAC
* * * * * ** *
1733136 CTTGCCTTTAACCCCCGATGACATCATC-GGAAGGTGCAGCGAACCCTTTGAGAAGCAGCTCACT
1 CTTGCCTGTAACCCCCGATGGCGTCACCTGG-GGGTGCAGCGAACCGGTTGAGAAGCAGCTCATT
1733200 GAAACCGA
65 GAAACCGA
1733208 CGTGAATGTG
Statistics
Matches: 169, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
119 2 0.01
120 165 0.98
121 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (120 bp):
CTTGCCTGTAACCCCCGATGGCGTCACCTGGGGGTGCAGCGAACCGGTTGAGAAGCAGCTCATTG
AAACCGATGTAAATTCAGATAAGCCGATTAGCCCCATAATCGATGGAAGTGCCAC
Found at i:1740227 original size:21 final size:22
Alignment explanation
Indices: 1740178--1740248 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 22
1740168 AATATATATT
*
1740178 AAAAAAAT-TA-ATA-ATAATA
1 AAAAAAATATACATACAAAATA
* * *
1740197 AACAATATATACATA-AAAATG
1 AAAAAAATATACATACAAAATA
* *
1740218 ATAAAAATATATATACAAAATA
1 AAAAAAATATACATACAAAATA
1740240 AAAAAAATA
1 AAAAAAATA
1740249 AAATATAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 18 0.46
22 13 0.33
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (22 bp):
AAAAAAATATACATACAAAATA
Found at i:1740246 original size:23 final size:23
Alignment explanation
Indices: 1740211--1740287 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
1740201 ATATATACAT
* * *
1740211 AAAAATGATAAAAAT-ATATATA
1 AAAAATAAAAAAAATAAAATATA
*
1740233 CAAAATAAAAAAAATAAAATATA
1 AAAAATAAAAAAAATAAAATATA
1740256 AAAAATAAATAAAAACGTGAAAATA-A
1 AAAAATAAA-AAAAA--T-AAAATATA
1740282 AAAAAT
1 AAAAAT
1740288 GACCAATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 12 0.27
23 14 0.31
24 5 0.11
26 8 0.18
27 6 0.13
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAAATAAAAAAAATAAAATATA
Found at i:1740251 original size:14 final size:14
Alignment explanation
Indices: 1740234--1740270 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
1740224 ATATATATAC
1740234 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
*
1740248 AAAATATAAAAAAT
1 AAAATAAAAAAAAT
1740262 -AAATAAAAA
1 AAAATAAAAA
1740271 CGTGAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:1742607 original size:2 final size:2
Alignment explanation
Indices: 1742600--1742631 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1742590 AGAACATTGA
1742600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1742632 GAGGCAGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1744053 original size:2 final size:2
Alignment explanation
Indices: 1744046--1744086 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1744036 TTGCTCAAGT
1744046 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1744087 GTGAATTGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1748343 original size:49 final size:49
Alignment explanation
Indices: 1748247--1748343 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
1748237 GTGTATGTGT
* **
1748247 ATAATATATGATCTTGACATATAACAATTAAATAAATATAATTTTTGAA
1 ATAATATATGATCTTCACATATAACAATTAAATAAATATAAAATTTGAA
* *
1748296 ATAATATATGCTCTTCACGTATAACAATTAAATAAATATAAAATTTGA
1 ATAATATATGATCTTCACATATAACAATTAAATAAATATAAAATTTGA
1748344 TTTTTGGGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.37
Consensus pattern (49 bp):
ATAATATATGATCTTCACATATAACAATTAAATAAATATAAAATTTGAA
Found at i:1748571 original size:58 final size:58
Alignment explanation
Indices: 1748503--1748628 Score: 146
Period size: 58 Copynumber: 2.2 Consensus size: 58
1748493 CAGATGGTCC
* * *
1748503 CTCGACTATAGGGTGTTGCTTTGTTGAGTC-CCCCGACTATTAAGAGTTACAAAATGGT
1 CTCGACTATAGGATATTGCTTTGTTGAGTCTCCCC-ACTATTAAAAGTTACAAAATGGT
* * * ** *
1748561 CTCGATTATAGTATATTGTTTTGTTGAGTCTCTTCATTATTAAAAGTTACAAAATGGT
1 CTCGACTATAGGATATTGCTTTGTTGAGTCTCCCCACTATTAAAAGTTACAAAATGGT
1748619 CTTCGACTAT
1 C-TCGACTAT
1748629 CCATTATATT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
58 47 0.84
59 9 0.16
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (58 bp):
CTCGACTATAGGATATTGCTTTGTTGAGTCTCCCCACTATTAAAAGTTACAAAATGGT
Found at i:1750884 original size:60 final size:60
Alignment explanation
Indices: 1750772--1750884 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
1750762 ATAGTCGAGT
* * * **
1750772 GATCATTTTGTAACTTTTAATAGTGGAAGGGCTTAATAAAGCAATATTCTATAGTCAAAA
1 GATCATTTTATAACTTTCAATAGTGGAAGGGCTTAATAAAACAATACCCTATAGTCAAAA
* *
1750832 GATCATTTTATAACTTTCAATAGTTG-AGGGACTTAATAAAATAATACCCTATA
1 GATCATTTTATAACTTTCAATAGTGGAAGGG-CTTAATAAAACAATACCCTATA
1750885 ATCGATGGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 4 0.09
60 41 0.91
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (60 bp):
GATCATTTTATAACTTTCAATAGTGGAAGGGCTTAATAAAACAATACCCTATAGTCAAAA
Found at i:1751146 original size:24 final size:25
Alignment explanation
Indices: 1751090--1751147 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
1751080 TTTGGAATTA
1751090 AATATTTAATGAATCTTATTATTTT
1 AATATTTAATGAATCTTATTATTTT
* *
1751115 AA-ACTTAATTAAT-TTATT-TTTT
1 AATATTTAATGAATCTTATTATTTT
1751137 CAATATTTAAT
1 -AATATTTAAT
1751148 CTTTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.14
23 7 0.25
24 15 0.54
25 2 0.07
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (25 bp):
AATATTTAATGAATCTTATTATTTT
Found at i:1751699 original size:22 final size:22
Alignment explanation
Indices: 1751659--1751700 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1751649 AGGATAACGT
** *
1751659 TTCAGGGTGGGCACTATAAAAA
1 TTCAGGGTGAACACAATAAAAA
1751681 TTCAGGGTGAACACAATAAA
1 TTCAGGGTGAACACAATAAA
1751701 TAAACTCAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (22 bp):
TTCAGGGTGAACACAATAAAAA
Found at i:1753809 original size:184 final size:182
Alignment explanation
Indices: 1753561--1753949 Score: 568
Period size: 184 Copynumber: 2.1 Consensus size: 182
1753551 ATTTTATAAT
* * *
1753561 TTATATA-AAAATTAAATA-TTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAA
1 TTATATATAATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAA
** * *
1753624 TTATAAAATAAAAATTTTAGATAATTTTTTTAATTAATTAATATTAATTTATGTTTAAAAGTTAT
66 TTATAAAATAAAAATTTTAGATAAAATTTTTAATTAATTAATATTAATTTAGGCTTAAAAGTTAT
** * *
1753689 TGGATCTTAAATTATTAATTG-GATTTTAAATAGTTTGGGCTGAGCTCATATG
131 TGGATCTTAAATTATTAATTGAG-TTTTAAATAGTTTGGGCAAAACCCATATG
*
1753741 TTATATATAATATTTAATATTTTTTAATTCAAAAAAACAGTTTGCAATTAATTTAAATAATATAT
1 TTATATATAATATTTAATATTTTTTAATTC-AAAAAA-AGTTTACAATTAATTTAAATAATATAT
* *
1753806 AATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGCTTAAAAGTT
64 AATTATAAAATAAAAATTTTAGATAAAATTTTTAATTAATTAATATTAATTTAGGCTTAAAAGTT
*
1753871 ATTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCAAAACCCATATG
129 ATTGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCAAAACCCATATG
1753925 TTATATATAAATATATTTAATATTT
1 TTATATAT--A-ATATTTAATATTT
1753950 AAAATTTAAT
Statistics
Matches: 186, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
180 7 0.04
181 9 0.05
182 10 0.05
183 6 0.03
184 139 0.75
185 1 0.01
186 1 0.01
187 13 0.07
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (182 bp):
TTATATATAATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAA
TTATAAAATAAAAATTTTAGATAAAATTTTTAATTAATTAATATTAATTTAGGCTTAAAAGTTAT
TGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGGGCAAAACCCATATG
Found at i:1754440 original size:2 final size:2
Alignment explanation
Indices: 1754427--1754491 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
1754417 CCTAATATGC
*
1754427 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1754469 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
1754492 CTCATATGGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1754564 original size:30 final size:30
Alignment explanation
Indices: 1754525--1754594 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
1754515 TATCAGTTCA
* *
1754525 AAGAGATAAAGTATAACTAATCATATAAAAT
1 AAGAAATAAAGTACAACTAATCATA-AAAAT
** *
1754556 AA-AAATAAAGTACAGTTAATTATAAAAAT
1 AAGAAATAAAGTACAACTAATCATAAAAAT
1754585 AAGAAATAAA
1 AAGAAATAAA
1754595 ATCAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 24 0.73
31 2 0.06
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.24
Consensus pattern (30 bp):
AAGAAATAAAGTACAACTAATCATAAAAAT
Found at i:1773470 original size:37 final size:37
Alignment explanation
Indices: 1773420--1773498 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
1773410 ATACGTATAG
*
1773420 ATGTTTCCAACACAGTGATTAGATTCAGAGTCCATGT
1 ATGTTTCCAACACACTGATTAGATTCAGAGTCCATGT
* * *
1773457 ATGTTTCCAACACACTGGTTATATTCAGAGTTCATGT
1 ATGTTTCCAACACACTGATTAGATTCAGAGTCCATGT
1773494 ATGTT
1 ATGTT
1773499 CTATATGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (37 bp):
ATGTTTCCAACACACTGATTAGATTCAGAGTCCATGT
Found at i:1782340 original size:19 final size:20
Alignment explanation
Indices: 1782257--1782337 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
1782247 TTTTGGTGCA
*
1782257 GAGGGAATCGA-TCCCCCCT
1 GAGGGAACCGATTCCCCCCT
**
1782276 GAGGGAACCGATTCCCCTTT
1 GAGGGAACCGATTCCCCCCT
*
1782296 GAAGGGAACCGATTCCCCCACA
1 G-AGGGAACCGATTCCCCC-CT
* *
1782318 G-GGGAATCGATACCCCCCT
1 GAGGGAACCGATTCCCCCCT
1782337 G
1 G
1782338 GGGTTCTGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 12 0.24
20 21 0.42
21 16 0.32
22 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCCT
Done.