Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000295.1 Hibiscus syriacus cultivar Beakdansim tig00000541_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: 2017499
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 8 of 9
Found at i:1496399 original size:24 final size:25
Alignment explanation
Indices: 1496372--1496440 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
1496362 GTAAACGGAG
*
1496372 ATATCAGAAATCAAAACAGAAAT-C
1 ATATCAGAAATCAGAACAGAAATCC
*
1496396 ATATCAGATATCAGAACAG-AATCC
1 ATATCAGAAATCAGAACAGAAATCC
*
1496420 AGATCAGAAATCAGAACAGAA
1 ATATCAGAAATCAGAACAGAA
1496441 TTCAGGTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
23 3 0.08
24 35 0.90
25 1 0.03
ACGTcount: A:0.54, C:0.17, G:0.13, T:0.16
Consensus pattern (25 bp):
ATATCAGAAATCAGAACAGAAATCC
Found at i:1496834 original size:27 final size:27
Alignment explanation
Indices: 1496804--1496864 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
1496794 ATTCTTATCC
1496804 ATAGATCATCTTC-GAAATCATCACTGA
1 ATAGATCATCTTCAG-AATCATCACTGA
1496831 ATAGATCATCTTCAGAATCATCACTGA
1 ATAGATCATCTTCAGAATCATCACTGA
1496858 ATAGATC
1 ATAGATC
1496865 TTAAGGAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
ATAGATCATCTTCAGAATCATCACTGA
Found at i:1500362 original size:24 final size:24
Alignment explanation
Indices: 1500305--1500362 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
1500295 AATCCAGATA
* *
1500305 AAAAATCAGAACAGAATTCAGGTC
1 AAAAATCAGAACAAAATTCAAGTC
*** *
1500329 ATGTACCAGAACAAAATTCAAGTC
1 AAAAATCAGAACAAAATTCAAGTC
1500353 AAAAATCAGA
1 AAAAATCAGA
1500363 TAAAATATTT
Statistics
Matches: 24, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.17, G:0.14, T:0.17
Consensus pattern (24 bp):
AAAAATCAGAACAAAATTCAAGTC
Found at i:1500714 original size:27 final size:27
Alignment explanation
Indices: 1500684--1500744 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
1500674 ATTCTTATCC
* *
1500684 ATAGATCATCTTC-GAAATCATCACTGA
1 ATAGATCATCTTCAG-AATAATCACTAA
1500711 ATAGATCATCTTCAGAATAATCACTAA
1 ATAGATCATCTTCAGAATAATCACTAA
1500738 ATAGATC
1 ATAGATC
1500745 TTAAGGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
ATAGATCATCTTCAGAATAATCACTAA
Found at i:1507810 original size:22 final size:21
Alignment explanation
Indices: 1507780--1507820 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
1507770 AAGATATATT
1507780 AAAAAAATA-AATAAATAAAGG
1 AAAAAAATATAAT-AATAAAGG
1507801 AAAAATAATATAATAATAAA
1 AAAAA-AATATAATAATAAA
1507821 TATTAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 10 0.56
23 3 0.17
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAAATATAATAATAAAGG
Found at i:1507925 original size:14 final size:14
Alignment explanation
Indices: 1507906--1507935 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1507896 AAAATTTCCT
1507906 TTTTTACTTCAAGA
1 TTTTTACTTCAAGA
1507920 TTTTTACTTCAAGA
1 TTTTTACTTCAAGA
1507934 TT
1 TT
1507936 CACATCGATT
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:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTTTACTTCAAGA
Found at i:1508614 original size:76 final size:75
Alignment explanation
Indices: 1508463--1508605 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 75
1508453 TAAAAATAAT
* * * *
1508463 ATAATATTCTAAATCCTAATTAAAATATTAAAACCTATTTAAACTAAAATACCTAAAATAAAAAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATA-CAAAAATAAAAAT
1508528 AAAATATAAAA
65 AAAATATAAAA
*
1508539 ATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATA-AAAAGATAAAATA
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAA-ATAAAA-A
1508603 TAA
64 TAA
1508606 TGTTTAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
74 3 0.05
75 6 0.10
76 51 0.85
ACGTcount: A:0.59, C:0.10, G:0.01, T:0.29
Consensus pattern (75 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAAATAAAAATA
AAATATAAAA
Found at i:1510808 original size:2 final size:2
Alignment explanation
Indices: 1510801--1510883 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
1510791 CTTTTAAAAC
1510801 AT AT AT 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
1510843 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
1510884 CCCCCATCCG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1513194 original size:65 final size:65
Alignment explanation
Indices: 1513079--1513220 Score: 175
Period size: 65 Copynumber: 2.2 Consensus size: 65
1513069 GCACTAAGAG
*
1513079 TGCATTCGATG-TTTCAAAATAGCCATAGTGAATCGATGCATTGTTGGTGTATCGATGCATCAAA
1 TGCATTCGATGTTTTCAAAATAGCCATAGTGAATCGATGCATGGTTGGTGTATCGATGCATCAAA
* * * * *
1513143 TGCATTCGATGTTTTCATAAA-ATCC-TCAGTGCATCGGTGCATGGTAT-GTGTATCGATGCTTG
1 TGCATTCGATGTTTTCA-AAATAGCCAT-AGTGAATCGATGCATGGT-TGGTGTATCGATGCATC
1513205 AAA
63 AAA
1513208 TGCATTCGATGTT
1 TGCATTCGATGTT
1513221 CAATTTAATT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
64 12 0.18
65 52 0.76
66 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (65 bp):
TGCATTCGATGTTTTCAAAATAGCCATAGTGAATCGATGCATGGTTGGTGTATCGATGCATCAAA
Found at i:1521946 original size:65 final size:64
Alignment explanation
Indices: 1521768--1521948 Score: 170
Period size: 65 Copynumber: 2.8 Consensus size: 64
1521758 ACTAAAAGTG
* * * ** *
1521768 CATTCGATGTTTCA-AAATAGCAAGAGTGCATCGATAAATGGTTGGTGCATCGATGCATCAAATC
1 CATTCGATGTTTCATAAA-ATCCATAGTGCATCGATGCATGATTGGTGCATCGATGCATCAAATC
* * *
1521832 CATTCGATGTTTTCATAAAATCCTTAGTGCATCGGTGCATGATAT-GTGCATCGATGCATGAAAT
1 CATTCGATG-TTTCATAAAATCCATAGTGCATCGATGCATGAT-TGGTGCATCGATGCATCAAAT
*
1521896 G
64 C
** * *
1521897 CATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATTGATTGGTGCATC
1 CATTCGATGTTTC-ATAAAATCCATAGTGCATCGATGCA-TGATTGGTGCATC
1521949 AGTGCATTAC
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
63 3 0.03
64 29 0.31
65 59 0.62
66 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (64 bp):
CATTCGATGTTTCATAAAATCCATAGTGCATCGATGCATGATTGGTGCATCGATGCATCAAATC
Found at i:1526008 original size:19 final size:19
Alignment explanation
Indices: 1525952--1526014 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
1525942 CTATTTAAAC
**
1525952 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
1525972 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
1525992 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
1526011 TAAA
1 TAAA
1526015 CTAAAATACC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:1526123 original size:76 final size:74
Alignment explanation
Indices: 1525961--1526102 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 74
1525951 CTAAAATACC
* * * * *
1525961 TAAAAAATAATATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT
1 TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATA-CG
1526026 AAAACAAAGA
65 AAAACAAAGA
*
1526036 TAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATA-G
1 TAAAATAT-AAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACG
1526100 AAA
65 AAA
1526103 GATAAAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
74 3 0.05
75 7 0.12
76 50 0.83
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.28
Consensus pattern (74 bp):
TAAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACGA
AAACAAAGA
Found at i:1539990 original size:13 final size:13
Alignment explanation
Indices: 1539972--1539996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1539962 ACTTTTTGGT
1539972 CAAAGTCAACGGG
1 CAAAGTCAACGGG
1539985 CAAAGTCAACGG
1 CAAAGTCAACGG
1539997 TCGGTCAACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.28, T:0.08
Consensus pattern (13 bp):
CAAAGTCAACGGG
Found at i:1544368 original size:6 final size:6
Alignment explanation
Indices: 1544357--1544402 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
1544347 GTCAAACCCA
1544357 TTGAAT TTGAAT TTGAAT TTGAAT TTGAAT TTGAAT TTGAAT TTGA
1 TTGAAT TTGAAT TTGAAT TTGAAT TTGAAT TTGAAT TTGAAT TTGA
1544403 CTTTTACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TTGAAT
Found at i:1556423 original size:8 final size:8
Alignment explanation
Indices: 1556410--1556449 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
1556400 AAAAATGTCG
1556410 AAAAAAGA
1 AAAAAAGA
1556418 AAAAAAGA
1 AAAAAAGA
*
1556426 GAAAAAGAA
1 AAAAAAG-A
1556435 AAAAAAGA
1 AAAAAAGA
1556443 GAAAAAA
1 -AAAAAA
1556450 AGTCGTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:1556429 original size:17 final size:18
Alignment explanation
Indices: 1556394--1556449 Score: 71
Period size: 17 Copynumber: 3.1 Consensus size: 18
1556384 CAGTAGTTCG
*
1556394 AAGAAAAAAAATGTCGAAAA
1 AAGAAAAAAAA-G-AGAAAA
1556414 AAG-AAAAAAAGAG-AAA
1 AAGAAAAAAAAGAGAAAA
1556430 AAGAAAAAAAAGAGAAAA
1 AAGAAAAAAAAGAGAAAA
1556448 AA
1 AA
1556450 AGTCGTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.18
17 11 0.33
18 6 0.18
19 7 0.21
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (18 bp):
AAGAAAAAAAAGAGAAAA
Found at i:1568438 original size:28 final size:28
Alignment explanation
Indices: 1568406--1568466 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
1568396 GGGAATACAA
*
1568406 TGATTGAAAAACAAAATATTAGTAATCT
1 TGATTGAAAAACAAAATATTAGAAATCT
1568434 TGATTGAAAAACAAAATATTAGAAATCT
1 TGATTGAAAAACAAAATATTAGAAATCT
1568462 TGATT
1 TGATT
1568467 TAATAGCACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (28 bp):
TGATTGAAAAACAAAATATTAGAAATCT
Found at i:1568508 original size:29 final size:29
Alignment explanation
Indices: 1568476--1568534 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1568466 TTAATAGCAC
1568476 ATAGGTTTGATTATGGATTTTAGATTTTT
1 ATAGGTTTGATTATGGATTTTAGATTTTT
1568505 ATAGGTTTGATTATGGATTTTAGATTTTT
1 ATAGGTTTGATTATGGATTTTAGATTTTT
1568534 A
1 A
1568535 ATAATATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.54
Consensus pattern (29 bp):
ATAGGTTTGATTATGGATTTTAGATTTTT
Found at i:1574694 original size:14 final size:14
Alignment explanation
Indices: 1574656--1574705 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1574646 TTTAACTTTT
*
1574656 TGGTCAAAGTC-AG
1 TGGTCAAAGTCAAC
* *
1574669 TAGTCAATGTCAAC
1 TGGTCAAAGTCAAC
1574683 TGGTCAAAGTCAAC
1 TGGTCAAAGTCAAC
*
1574697 AGGTCAAAG
1 TGGTCAAAG
1574706 ATAACGGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 9 0.30
14 21 0.70
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (14 bp):
TGGTCAAAGTCAAC
Found at i:1579426 original size:44 final size:43
Alignment explanation
Indices: 1579354--1579517 Score: 195
Period size: 44 Copynumber: 3.7 Consensus size: 43
1579344 TACACCTAGA
* * *
1579354 AAGGACTTACCCTGTGCACAAAGTAGAGGAGCCTGCAGAAACAGT
1 AAGGTCTTACCCT-TGCACATAGCAGAGGAGCCTG-AGAAACAGT
*
1579399 AAGGTCTTACCCTTGCACATAGCAGAGGAGCCTGGGAAA-ATGGT
1 AAGGTCTTACCCTTGCACATAGCAGAGGAGCCTGAGAAACA--GT
* * * * *
1579443 AAGGTCTTATCCTTGCACACATCAAAGGAGCCTGAAGAAACGGT
1 AAGGTCTTACCCTTGCACATAGCAGAGGAGCCTG-AGAAACAGT
1579487 AAGGTCTTACCCTTGCACATAGCAGAGGAGC
1 AAGGTCTTACCCTTGCACATAGCAGAGGAGC
1579518 TAAGCCAATT
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 80 0.79
45 16 0.16
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (43 bp):
AAGGTCTTACCCTTGCACATAGCAGAGGAGCCTGAGAAACAGT
Found at i:1580935 original size:555 final size:556
Alignment explanation
Indices: 1580169--1581284 Score: 2045
Period size: 555 Copynumber: 2.0 Consensus size: 556
1580159 AATAATTGAA
1580169 TCTGTAATTTATCGAGTTAAGTATGAATCCTCAAAGTACTTTCTCATTTAAGGTCAACTTGGACT
1 TCTGTAATTTATCGAGTTAAGTATGAATCCTCAAAGTACTTTCTCATTTAAGGTCAACTTGGACT
*
1580234 ATTTTTACCTCTCAAGGTCATTTTTGTAATTTTTTAACTAGATAATATCGCTATTAAAACTCTTA
66 ATTTTTACCTCTCAAGGTCATTTTTGTAATTTCTTAACTAGATAATATCGCTATTAAAACTCTTA
**
1580299 ACAAGGATAATATAATTTGGAGATCCTAAGGTTATTTGTTTTCCCGGAAAAACTATGAACTTTAA
131 ACAAGGATAATATAATTTAAAGATCCTAAGGTTATTTGTTTTCCCGGAAAAACTATGAACTTTAA
*
1580364 ATTATTCCTTATCAAACTTCTAGTAATTTGTATAAGCCATATTGGGTTTAGAAATCAGTTATCCA
196 ATTATTCCTTATCAAACTTCTAGTAATTTGTACAAGCCATATTGGGTTTAGAAATCAGTTATCCA
1580429 GATTTTCTAAGCAAAGCTAGTATTTTCTATACACATCAGTAGTTTCATCAAATCAATATGTCTTT
261 GATTTTCTAAGCAAAGCTAGTATTTTCTATACACATCAGTAGTTTCATCAAATCAATATGTCTTT
** * *
1580494 AAAACTTTGTATCCAATTTCCAGAGTCAATTCTTATCTTTTTACAATATAAGGGTATTTTCGTAA
326 AAAACTTCATATCAAATTTCCAGAGTCAATTCTTATCTTTTTACAATATAAGGGTATTTTCATAA
*
1580559 TTTTAGTTAATTGAAGTATTCTCATAATTTATCGCTTAAACCGTATTCGGTTCGAGTTAATCCAT
391 TTTTAGCTAATTGAAGTATTCTCATAATTTATCGCTTAAACCGTATTCGGTTCGAGTTAATCCAT
1580624 AATCAAACATGCATAATAGTCCAATCATATATATCCATGCATTTTTCCATTT-CAACATGTTCTA
456 AATCAAACATGCATAATAGTCCAATCATATATATCCATGCATTTTTCCATTTACAACATGTTCTA
1580688 TAAAGCATAAAGAAGTAGTAATGTATTACCTCGATT
521 TAAAGCATAAAGAAGTAGTAATGTATTACCTCGATT
1580724 TCTGTAATTTATCGAGTTAAGTATGAATCCTCAAAGTACTTTCTCATTTAAGGTCAACTTGGACT
1 TCTGTAATTTATCGAGTTAAGTATGAATCCTCAAAGTACTTTCTCATTTAAGGTCAACTTGGACT
* * *
1580789 ATTTTTACCTCTCAAGGTCATTTTTTTAATTTCTTAACTAGATAATTTCGGTATTAAAACTCTTA
66 ATTTTTACCTCTCAAGGTCATTTTTGTAATTTCTTAACTAGATAATATCGCTATTAAAACTCTTA
* *
1580854 ACAAGGATAATATAATTTAAAGATCCTAAGGTTATTTGTTTTCTCGGAAAATCTATGAACTTTAA
131 ACAAGGATAATATAATTTAAAGATCCTAAGGTTATTTGTTTTCCCGGAAAAACTATGAACTTTAA
* * *
1580919 ATTATTCCTTATCAAACTTCTAGTAATTTGTACAAGCCGTCTTGGGTTTGGAAATCAGTTATCCA
196 ATTATTCCTTATCAAACTTCTAGTAATTTGTACAAGCCATATTGGGTTTAGAAATCAGTTATCCA
* *
1580984 GATTTTCTAAGCAAATCTAGTATTTTCTATACGCATCAGTAGTTTCATCAAATCAATATGTCTTT
261 GATTTTCTAAGCAAAGCTAGTATTTTCTATACACATCAGTAGTTTCATCAAATCAATATGTCTTT
1581049 AAAACTTCATATCAAATTTCCAGAGTCAATTCTTATCTTTTTACAATATAAGGGTATTTTCATAA
326 AAAACTTCATATCAAATTTCCAGAGTCAATTCTTATCTTTTTACAATATAAGGGTATTTTCATAA
1581114 TTTTAGCTAATTGAAGTATTCTCATAATTTATCGCTTAAACCGTATTCGGTTCGAGTTAATCCAT
391 TTTTAGCTAATTGAAGTATTCTCATAATTTATCGCTTAAACCGTATTCGGTTCGAGTTAATCCAT
1581179 AATCAAACATGCATAATAGTCCAATCATATATATCCATGCATTTTTCCATTTACAACATGTTCTA
456 AATCAAACATGCATAATAGTCCAATCATATATATCCATGCATTTTTCCATTTACAACATGTTCTA
*
1581244 TAAAGCATAAAGAGGTAGTAATGTATTACCTCGATT
521 TAAAGCATAAAGAAGTAGTAATGTATTACCTCGATT
1581280 TCTGT
1 TCTGT
1581285 GCTATACTGA
Statistics
Matches: 540, Mismatches: 20, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
555 488 0.90
556 52 0.10
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (556 bp):
TCTGTAATTTATCGAGTTAAGTATGAATCCTCAAAGTACTTTCTCATTTAAGGTCAACTTGGACT
ATTTTTACCTCTCAAGGTCATTTTTGTAATTTCTTAACTAGATAATATCGCTATTAAAACTCTTA
ACAAGGATAATATAATTTAAAGATCCTAAGGTTATTTGTTTTCCCGGAAAAACTATGAACTTTAA
ATTATTCCTTATCAAACTTCTAGTAATTTGTACAAGCCATATTGGGTTTAGAAATCAGTTATCCA
GATTTTCTAAGCAAAGCTAGTATTTTCTATACACATCAGTAGTTTCATCAAATCAATATGTCTTT
AAAACTTCATATCAAATTTCCAGAGTCAATTCTTATCTTTTTACAATATAAGGGTATTTTCATAA
TTTTAGCTAATTGAAGTATTCTCATAATTTATCGCTTAAACCGTATTCGGTTCGAGTTAATCCAT
AATCAAACATGCATAATAGTCCAATCATATATATCCATGCATTTTTCCATTTACAACATGTTCTA
TAAAGCATAAAGAAGTAGTAATGTATTACCTCGATT
Found at i:1587021 original size:20 final size:20
Alignment explanation
Indices: 1586993--1587030 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1586983 TAGGGGTGGT
*
1586993 GAGGCGAGCTGATTAGCATG
1 GAGGAGAGCTGATTAGCATG
1587013 GAGGAGAGCTGATTAGCA
1 GAGGAGAGCTGATTAGCA
1587031 CGGTGGCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.39, T:0.18
Consensus pattern (20 bp):
GAGGAGAGCTGATTAGCATG
Found at i:1597214 original size:22 final size:22
Alignment explanation
Indices: 1597203--1597246 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1597193 ACGATCAGAT
1597203 CGGTCAAAGTCAACTGTATGAC
1 CGGTCAAAGTCAACTGTATGAC
* *
1597225 CGGTCAAAGTCAAGTGTCTGAC
1 CGGTCAAAGTCAACTGTATGAC
1597247 TGATCAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (22 bp):
CGGTCAAAGTCAACTGTATGAC
Found at i:1597253 original size:22 final size:22
Alignment explanation
Indices: 1597206--1597253 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1597196 ATCAGATCGG
*
1597206 TCAAAGTCAACTGTATGACCGG
1 TCAAAGTCAACTGTATGACCGA
* * *
1597228 TCAAAGTCAAGTGTCTGACTGA
1 TCAAAGTCAACTGTATGACCGA
1597250 TCAA
1 TCAA
1597254 CTTTGACCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (22 bp):
TCAAAGTCAACTGTATGACCGA
Found at i:1602051 original size:12 final size:12
Alignment explanation
Indices: 1602034--1602059 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1602024 AAACATGTCT
1602034 AGACATTTTTAG
1 AGACATTTTTAG
1602046 AGACATTTTTAG
1 AGACATTTTTAG
1602058 AG
1 AG
1602060 GTCTGTAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (12 bp):
AGACATTTTTAG
Found at i:1609759 original size:29 final size:29
Alignment explanation
Indices: 1609709--1609776 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
1609699 AATTTTTTTA
* * *
1609709 TCAAAGTCAACAGGCAATGGTCAGACTGG
1 TCAAAGTCAACAGGAAACGGTCAAACTGG
*
1609738 TCAAAGTCAACGGGAAACGGTCAAACTGG
1 TCAAAGTCAACAGGAAACGGTCAAACTGG
1609767 TCAAAGTCAA
1 TCAAAGTCAA
1609777 TGGTCTGACC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (29 bp):
TCAAAGTCAACAGGAAACGGTCAAACTGG
Found at i:1609862 original size:17 final size:18
Alignment explanation
Indices: 1609840--1609877 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1609830 CAACGGATCA
*
1609840 GGTCAAGGGTA-TGGTCG
1 GGTCAAGGGTACGGGTCG
1609857 GGTCAAGGGTACGGGTCG
1 GGTCAAGGGTACGGGTCG
1609875 GGT
1 GGT
1609878 TGGGTCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.16, C:0.13, G:0.50, T:0.21
Consensus pattern (18 bp):
GGTCAAGGGTACGGGTCG
Found at i:1622122 original size:22 final size:22
Alignment explanation
Indices: 1622088--1622138 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1622078 TTTGATAAGA
*
1622088 GTTGACCGTTGACAGGTCAGACT
1 GTTGA-CGTTGACAGGTCAGACC
* *
1622111 GTTGACGTTGACCGGTCTGACC
1 GTTGACGTTGACAGGTCAGACC
1622133 GTTGAC
1 GTTGAC
1622139 CATTAACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (22 bp):
GTTGACGTTGACAGGTCAGACC
Found at i:1622623 original size:13 final size:13
Alignment explanation
Indices: 1622605--1622635 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1622595 CCTTGTATGC
1622605 AAATAACTATTTT
1 AAATAACTATTTT
1622618 AAATAACTATTTT
1 AAATAACTATTTT
1622631 AAATA
1 AAATA
1622636 TTTGTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATAACTATTTT
Found at i:1627750 original size:45 final size:45
Alignment explanation
Indices: 1627657--1627836 Score: 281
Period size: 45 Copynumber: 4.0 Consensus size: 45
1627647 GGTAACTATG
* *
1627657 AAAATAAGCTTACGAGCTTATGGAATTTAATGGTAAGTATATTT-GT
1 AAAATAAGCTTACGAGCTTATGGGA-TAAATGGTAAGTAT-TTTGGT
*
1627703 AAAATAAGCTTACGAGCTTATGAGATAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATTTTGGT
*
1627748 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATTTTGGT
* *
1627793 AAAATAAGCTTATGAGCTTATGGGTTAAATGGTAAGTATTTTGG
1 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATTTTGG
1627837 ACAAATGGTA
Statistics
Matches: 125, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
44 3 0.02
45 99 0.79
46 23 0.18
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATTTTGGT
Found at i:1637456 original size:13 final size:13
Alignment explanation
Indices: 1637440--1637474 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1637430 AATATAACTA
1637440 TTTTAAATAATTG
1 TTTTAAATAATTG
*
1637453 TTTTAAATATTTG
1 TTTTAAATAATTG
*
1637466 TTTGAAATA
1 TTTTAAATA
1637475 TCATGTGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (13 bp):
TTTTAAATAATTG
Found at i:1640356 original size:58 final size:57
Alignment explanation
Indices: 1640261--1640381 Score: 156
Period size: 58 Copynumber: 2.1 Consensus size: 57
1640251 TAGCAGGCTG
** * **
1640261 CATAC-GGGATGCACTAAAGGATACCTAGTGTATATGGTGGGTACGACCTTATGT-T
1 CATACGGGGATGCACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
*
1640316 CCATACGGGGACTGCACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 -CATACGGGGA-TGCACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1640375 CATACGG
1 CATACGG
1640382 ATTAGCACTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
56 5 0.09
57 4 0.07
58 46 0.82
59 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (57 bp):
CATACGGGGATGCACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:1640602 original size:45 final size:45
Alignment explanation
Indices: 1640464--1640617 Score: 166
Period size: 45 Copynumber: 3.4 Consensus size: 45
1640454 TGGTATATAG
* * * * *
1640464 TTATGGAA-TAATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAACAAATGGTAAGTATAATGATAAAATAAGCTTACGAGC
* *
1640508 TTATAGAACAAATGGTAAGTATAATGATAAGATAAGCTTACGAGC
1 TTATGGAACAAATGGTAAGTATAATGATAAAATAAGCTTACGAGC
* * * **
1640553 TTATGGGATAAATTGTAAGTATTTTGATAAAATAAGCTTACGAGC
1 TTATGGAACAAATGGTAAGTATAATGATAAAATAAGCTTACGAGC
*
1640598 TTATGGTTAACAATTGGTAA
1 TTATGG--AACAAATGGTAA
1640618 AATATTGAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
44 7 0.08
45 74 0.83
47 8 0.09
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (45 bp):
TTATGGAACAAATGGTAAGTATAATGATAAAATAAGCTTACGAGC
Found at i:1641062 original size:11 final size:11
Alignment explanation
Indices: 1641046--1641071 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1641036 TGAAAGGTTA
1641046 ATTTTTATGAG
1 ATTTTTATGAG
1641057 ATTTTTATGAG
1 ATTTTTATGAG
1641068 ATTT
1 ATTT
1641072 ATTACTGTAG
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:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (11 bp):
ATTTTTATGAG
Found at i:1643375 original size:28 final size:29
Alignment explanation
Indices: 1643344--1643417 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 29
1643334 AAAAGAGAGG
1643344 AAAGAATAAAAAGAAAAAGA-AAATAAAA-
1 AAAGAATAAAAAGAAAAAGAGAAA-AAAAT
*
1643372 AAAG-TTGAAAAAGAAAAAGAGAAAAAAATT
1 AAAGAAT-AAAAAGAAAAAGAGAAAAAAA-T
*
1643402 AAAGAAGAAAAA-AAAA
1 AAAGAATAAAAAGAAAA
1643418 GAATATTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
27 1 0.03
28 21 0.55
29 7 0.18
30 9 0.24
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (29 bp):
AAAGAATAAAAAGAAAAAGAGAAAAAAAT
Found at i:1643398 original size:16 final size:17
Alignment explanation
Indices: 1643379--1643420 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1643369 AAAAAAGTTG
1643379 AAAAAGAAA-AAGAGAAA
1 AAAAAGAAAGAAGA-AAA
**
1643396 AAAATTAAAGAAGAAAA
1 AAAAAGAAAGAAGAAAA
1643413 AAAAAGAA
1 AAAAAGAA
1643421 TATTTCACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAGAAGAAAA
Found at i:1646541 original size:29 final size:29
Alignment explanation
Indices: 1646486--1646553 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
1646476 CATTTTACAC
* * *
1646486 AAATAGCACCCTTTTTAAAATATTTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
* *
1646515 AAATAGCACCCATTTCGAATTAATTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
* *
1646544 GAATAACACC
1 AAATAGCACC
1646554 AAAACTGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.28
Consensus pattern (29 bp):
AAATAGCACCCATTTCAAAATAATTACCA
Found at i:1646563 original size:29 final size:29
Alignment explanation
Indices: 1646531--1646645 Score: 169
Period size: 29 Copynumber: 4.0 Consensus size: 29
1646521 CACCCATTTC
* *
1646531 GAATTAATTACCAGAATAACACCAAAACT
1 GAATTATTTACCAGAATAGCACCAAAACT
1646560 GAATTATTTACCAGAATAGCACCAAAACT
1 GAATTATTTACCAGAATAGCACCAAAACT
* *
1646589 G-ATATATTTACCAGAATAGCACTAAAACC
1 GAAT-TATTTACCAGAATAGCACCAAAACT
*
1646618 GAATTATTTATCAGAATAGCACCAAAAC
1 GAATTATTTACCAGAATAGCACCAAAAC
1646646 GATCGGGTCG
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
28 2 0.03
29 74 0.95
30 2 0.03
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (29 bp):
GAATTATTTACCAGAATAGCACCAAAACT
Found at i:1646671 original size:13 final size:13
Alignment explanation
Indices: 1646649--1646685 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1646639 CCAAAACGAT
1646649 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
* *
1646662 CGGGTTGGGTAAA
1 CGGGTCGGGTCAA
1646675 CGGGTCGGGTC
1 CGGGTCGGGTC
1646686 GTGACCGGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.49, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:1653844 original size:29 final size:29
Alignment explanation
Indices: 1653828--1653907 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 29
1653818 ACCCATTTCG
1653828 AATTAATTACCAGAATAGCACCAAAACCA
1 AATTAATTACCAGAATAGCACCAAAACCA
* *
1653857 AATTATTTACCAGAATAGCACCAAAACCG
1 AATTAATTACCAGAATAGCACCAAAACCA
* * *
1653886 AATTATTTAGCATAATAGCACC
1 AATTAATTACCAGAATAGCACC
1653908 GGTCAACGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.23
Consensus pattern (29 bp):
AATTAATTACCAGAATAGCACCAAAACCA
Found at i:1657190 original size:57 final size:56
Alignment explanation
Indices: 1657098--1657209 Score: 161
Period size: 57 Copynumber: 2.0 Consensus size: 56
1657088 AAGCAGGCTG
** **
1657098 CATACGGGATACACTAAAGGATACCTAGTGTATATGGTGGGTACGACCTTATGTGC
1 CATACGGGATACACTAAAGGATACCTAGTACATATGGTGGACACGACCTTATGTGC
* *
1657154 CATACGGGACTATACTTAAGGATACCTAGTACATATGGTGGACACGACCTTATGTG
1 CATACGGGA-TACACTAAAGGATACCTAGTACATATGGTGGACACGACCTTATGTG
1657210 TCTTATGGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
56 9 0.18
57 40 0.82
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (56 bp):
CATACGGGATACACTAAAGGATACCTAGTACATATGGTGGACACGACCTTATGTGC
Found at i:1657491 original size:13 final size:13
Alignment explanation
Indices: 1657475--1657499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1657465 TGGTCACTAT
1657475 TATTGTTCACGGG
1 TATTGTTCACGGG
1657488 TATTGTTCACGG
1 TATTGTTCACGG
1657500 TTCATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (13 bp):
TATTGTTCACGGG
Found at i:1674578 original size:156 final size:157
Alignment explanation
Indices: 1674294--1674609 Score: 616
Period size: 156 Copynumber: 2.0 Consensus size: 157
1674284 AAAAACAAAA
1674294 TATTAGTAATCTTGATTTAATAGCACATAGCTTTGATTATGTATTTTAGATTTTTAATAATATTC
1 TATTAGTAATCTTGATTTAATAGCACATAGCTTTGATTATGTATTTTAGATTTTTAATAATATTC
1674359 TTAAAGCAATTTGAGTGAAGACAAAACTAAAAACTTTATACTTCTTACTAGAATTAGTAATGGAT
66 TTAAAGCAATTTGAGTGAAGACAAAACTAAAAACTTTATACTTCTTACTAGAATTAGTAATGGAT
1674424 AAGTATCACCAAACAT-ATAATCACTT
131 AAGTATCACCAAACATAATAATCACTT
1674450 TATTAGTAATCTTGATTTAATAGCACATAGCTTTGATTATGTATTTTAGATTTTTAATAATATTC
1 TATTAGTAATCTTGATTTAATAGCACATAGCTTTGATTATGTATTTTAGATTTTTAATAATATTC
1674515 TTAAAGCAATTTGAGTGAAGACAAAACTAAAAACTTTATACTTCTTACTAGAATTAGTAATGGAT
66 TTAAAGCAATTTGAGTGAAGACAAAACTAAAAACTTTATACTTCTTACTAGAATTAGTAATGGAT
1674580 AAGTATCACCAAACATAAATAATCACTT
131 AAGTATCACCAAACAT-AATAATCACTT
1674608 TA
1 TA
1674610 GGGCCCGAGT
Statistics
Matches: 158, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
156 146 0.92
158 12 0.08
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (157 bp):
TATTAGTAATCTTGATTTAATAGCACATAGCTTTGATTATGTATTTTAGATTTTTAATAATATTC
TTAAAGCAATTTGAGTGAAGACAAAACTAAAAACTTTATACTTCTTACTAGAATTAGTAATGGAT
AAGTATCACCAAACATAATAATCACTT
Found at i:1677319 original size:44 final size:43
Alignment explanation
Indices: 1677254--1677397 Score: 153
Period size: 44 Copynumber: 3.3 Consensus size: 43
1677244 AGCCGAGTAT
* * *
1677254 CCTGCGGAAAGCGGTATGGTCTTACCCTATCATATAGCAGATGAG
1 CCTGCAGAAA-CGGTAAGGTCTTACCCT-TCACATAGCAGATGAG
* * *
1677299 CCTGCAGAAACGGTAAGGTCTTACCCTGGCACATAGCAGAGGAT
1 CCTGCAGAAACGGTAAGGTCTTACCCT-TCACATAGCAGATGAG
* * * *
1677343 ACTTCAGAAATGGTAAGGTCTTACCCTTGCACATAGCAAATGAG
1 CCTGCAGAAACGGTAAGGTCTTACCCTT-CACATAGCAGATGAG
*
1677387 CCTTCAGAAAC
1 CCTGCAGAAAC
1677398 TTCCTCCAAC
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
44 73 0.89
45 9 0.11
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (43 bp):
CCTGCAGAAACGGTAAGGTCTTACCCTTCACATAGCAGATGAG
Found at i:1681733 original size:2 final size:2
Alignment explanation
Indices: 1681726--1681767 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1681716 TTTTAATTGG
*
1681726 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1681768 ATTTGGAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1684352 original size:89 final size:91
Alignment explanation
Indices: 1684198--1684383 Score: 268
Period size: 89 Copynumber: 2.1 Consensus size: 91
1684188 GATAAGACCT
* * *
1684198 TACGGACCTAAAGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTCAGTTCCC
1 TACGGACCTAAAGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAAGTCAGCTCCC
* *
1684263 TT-TGCTGTGTGCTTAGGGTAA-CCC
66 TTCTGCTGTATACTTAGGGTAAGCCC
* **
1684287 TACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAAGTTGGCTCCC
1 TACGGACCTAAAGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAAGTCAGCTCCC
*
1684352 TTCTGTTGTATACTTAGGGTAAGCCC
66 TTCTGCTGTATACTTAGGGTAAGCCC
*
1684378 AACGGA
1 TACGGA
1684384 TGTAGTTATG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 61 0.72
90 16 0.19
91 8 0.09
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (91 bp):
TACGGACCTAAAGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAAGTCAGCTCCC
TTCTGCTGTATACTTAGGGTAAGCCC
Found at i:1689822 original size:26 final size:27
Alignment explanation
Indices: 1689791--1689842 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1689781 GATATTCTTG
*
1689791 GGTCA-TTTGTAT-TCTAGGCGTATTTT
1 GGTCATTTTATATATCTAGG-GTATTTT
1689817 GGTCATTTTATATATCTAGGGTATTT
1 GGTCATTTTATATATCTAGGGTATTT
1689843 CATTCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 12 0.52
28 6 0.26
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (27 bp):
GGTCATTTTATATATCTAGGGTATTTT
Found at i:1690656 original size:17 final size:17
Alignment explanation
Indices: 1690634--1690666 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1690624 ACCGAAAAAA
*
1690634 GTCAACGGCGGTCAATG
1 GTCAACGACGGTCAATG
1690651 GTCAACGACGGTCAAT
1 GTCAACGACGGTCAAT
1690667 AGTCTTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.18
Consensus pattern (17 bp):
GTCAACGACGGTCAATG
Found at i:1700537 original size:24 final size:24
Alignment explanation
Indices: 1700510--1700568 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
1700500 CAGTAAACAA
* *
1700510 AACAGAATTCATATCAGATATCAG
1 AACAGAATTCAAATCAGAAATCAG
*
1700534 AACAGAATCCAAATCAGAAATCAG
1 AACAGAATTCAAATCAGAAATCAG
*
1700558 AACATAATTCA
1 AACAGAATTCA
1700569 GGTAATGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.20
Consensus pattern (24 bp):
AACAGAATTCAAATCAGAAATCAG
Found at i:1705032 original size:2 final size:2
Alignment explanation
Indices: 1705027--1705057 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1705017 TTAAAAAAAC
*
1705027 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1705058 CCTCCATCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1705248 original size:24 final size:24
Alignment explanation
Indices: 1705221--1705292 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
1705211 AAACTGAGAT
1705221 ATCAGAAATCAAAACAAAATTCAG
1 ATCAGAAATCAAAACAAAATTCAG
* * *
1705245 ATCA-AATATCATAACATAATCCAG
1 ATCAGAA-ATCAAAACAAAATTCAG
* *
1705269 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAAAATTCAG
1705293 GTAATGTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAAAACAAAATTCAG
Found at i:1705303 original size:48 final size:47
Alignment explanation
Indices: 1705221--1705329 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 47
1705211 AAACTGAGAT
* *
1705221 ATCAGAAATCAAAACAAAATTCAGATCAAATATCATAACATAATCCA
1 ATCAGAAATCAGAACAAAATTCAGATCAAATATCAGAACATAATCCA
* * * *
1705268 GATCAGAAATCAGAACAGAATTCAGGT-AATGTATCAGAACATAATTCA
1 -ATCAGAAATCAGAACAAAATTCAGATCAA-ATATCAGAACATAATCCA
*
1705316 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
1705330 TAAAATATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 3 0.06
48 49 0.94
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.21
Consensus pattern (47 bp):
ATCAGAAATCAGAACAAAATTCAGATCAAATATCAGAACATAATCCA
Found at i:1709960 original size:24 final size:24
Alignment explanation
Indices: 1709933--1710005 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
1709923 GTAAACGGAG
1709933 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAAAACAGAATTC
* *
1709957 ATATCA-AATATCATAACAGAATCC
1 ATATCAGAA-ATCAAAACAGAATTC
* *
1709981 ATATCAGAAATCAGAACATAATTC
1 ATATCAGAAATCAAAACAGAATTC
1710005 A
1 A
1710006 GGTAATGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.05
24 38 0.90
25 2 0.05
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23
Consensus pattern (24 bp):
ATATCAGAAATCAAAACAGAATTC
Found at i:1714438 original size:29 final size:29
Alignment explanation
Indices: 1714406--1714481 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
1714396 TTTTTAAAAA
* * ***
1714406 AATTACCAAAATAGCACCTATTTCGAATT
1 AATTCCCAAAATAGCACCAAAACCGAATT
* *
1714435 AATTCCCAGAATAGCACAAAAACCGAATT
1 AATTCCCAAAATAGCACCAAAACCGAATT
1714464 AATTCCCAAAATAGCACC
1 AATTCCCAAAATAGCACC
1714482 GGTCAACGGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.22
Consensus pattern (29 bp):
AATTCCCAAAATAGCACCAAAACCGAATT
Found at i:1714556 original size:10 final size:10
Alignment explanation
Indices: 1714536--1714590 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
1714526 ACGGGTCGTG
1714536 ACCGGTC-AA
1 ACCGGTCAAA
1714545 ACCGGTCAAA
1 ACCGGTCAAA
1714555 ACCGGTTCAAA
1 ACCGG-TCAAA
*
1714566 ACCGGT-TAA
1 ACCGGTCAAA
1714575 ACCGGTCAAA
1 ACCGGTCAAA
1714585 ACCGGT
1 ACCGGT
1714591 TTTCAGCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
9 15 0.37
10 16 0.39
11 10 0.24
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:1714591 original size:19 final size:19
Alignment explanation
Indices: 1714536--1714591 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1714526 ACGGGTCGTG
*
1714536 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGT-TAA
1714555 ACCGGTTCAAAACCGGTTAA
1 ACCGG-TCAAAACCGGTTAA
1714575 ACCGGTCAAAACCGGTT
1 ACCGGTCAAAACCGGTT
1714592 TTCAGCGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 9 0.26
21 8 0.24
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAAACCGGTTAA
Found at i:1721768 original size:18 final size:18
Alignment explanation
Indices: 1721745--1721797 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
1721735 ACCGGTCAAC
1721745 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
1721763 GGTCAACGGGTCGGGTCT
1 GGTCAACGGGTCGGGTCG
*
1721781 GGTCAACGGGTCTGGTC
1 GGTCAACGGGTCGGGTC
1721798 AACGGGTCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.11, C:0.23, G:0.45, T:0.21
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:1721790 original size:13 final size:13
Alignment explanation
Indices: 1721774--1721805 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1721764 GTCAACGGGT
1721774 CGGGTCTGGTCAA
1 CGGGTCTGGTCAA
1721787 CGGGTCTGGTCAA
1 CGGGTCTGGTCAA
1721800 CGGGTC
1 CGGGTC
1721806 GTGACCGGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.25, G:0.41, T:0.22
Consensus pattern (13 bp):
CGGGTCTGGTCAA
Found at i:1721816 original size:31 final size:31
Alignment explanation
Indices: 1721756--1721817 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1721746 GTCAACGGGT
* *
1721756 CGGGTCGGGTCAACGGGTCGGGTCTGGTCAA
1 CGGGTCGGGTCAACGGGTCGGGACCGGTCAA
* *
1721787 CGGGTCTGGTCAACGGGTCGTGACCGGTCAA
1 CGGGTCGGGTCAACGGGTCGGGACCGGTCAA
1721818 ACCGGTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.19
Consensus pattern (31 bp):
CGGGTCGGGTCAACGGGTCGGGACCGGTCAA
Found at i:1721829 original size:10 final size:10
Alignment explanation
Indices: 1721809--1721863 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
1721799 ACGGGTCGTG
1721809 ACCGGTC-AA
1 ACCGGTCAAA
1721818 ACCGGTCAAA
1 ACCGGTCAAA
1721828 ACCGGTTCAAA
1 ACCGG-TCAAA
*
1721839 ACCGGT-TAA
1 ACCGGTCAAA
1721848 ACCGGTCAAA
1 ACCGGTCAAA
1721858 ACCGGT
1 ACCGGT
1721864 TTTCAGCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
9 15 0.37
10 16 0.39
11 10 0.24
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:1721864 original size:19 final size:19
Alignment explanation
Indices: 1721809--1721864 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1721799 ACGGGTCGTG
*
1721809 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGT-TAA
1721828 ACCGGTTCAAAACCGGTTAA
1 ACCGG-TCAAAACCGGTTAA
1721848 ACCGGTCAAAACCGGTT
1 ACCGGTCAAAACCGGTT
1721865 TTCAGCGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 9 0.26
21 8 0.24
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAAACCGGTTAA
Found at i:1722708 original size:12 final size:12
Alignment explanation
Indices: 1722670--1722761 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
1722660 ATTTCTGAAT
1722670 TGAATTCTGTTC
1 TGAATTCTGTTC
*
1722682 TG-ATAC-GTTACC
1 TGAATTCTGTT--C
1722694 TGAATTCTGTTC
1 TGAATTCTGTTC
*
1722706 TG-ATTCTGATC
1 TGAATTCTGTTC
*
1722717 TGGATTCTGTTC
1 TGAATTCTGTTC
* *
1722729 TG-ATATCTGATA
1 TGAAT-TCTGTTC
*
1722741 TGAATTCTGTTT
1 TGAATTCTGTTC
*
1722753 TGATTTCTG
1 TGAATTCTG
1722762 ATATCTCTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
10 3 0.05
11 15 0.23
12 38 0.59
13 5 0.08
14 3 0.05
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:1722745 original size:47 final size:46
Alignment explanation
Indices: 1722656--1722763 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 46
1722646 AAATATTTTA
*
1722656 TCTGATTTCTGAATTGAATTCTGTTCTGATACGTTACCTGAATTCTGT
1 TCTGATTTCTG-ATTGAATTCTGTTCTGATACGATA-CTGAATTCTGT
*
1722704 TCTGA-TTCTGATCTGGATTCTGTTCTGATATCTGATA-TGAATTCTGT
1 TCTGATTTCTGAT-TGAATTCTGTTCTGATA-C-GATACTGAATTCTGT
*
1722751 TTTGATTTCTGAT
1 TCTGATTTCTGAT
1722764 ATCTCTGTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
46 2 0.04
47 35 0.66
48 13 0.25
49 3 0.06
ACGTcount: A:0.19, C:0.15, G:0.18, T:0.48
Consensus pattern (46 bp):
TCTGATTTCTGATTGAATTCTGTTCTGATACGATACTGAATTCTGT
Found at i:1722761 original size:24 final size:24
Alignment explanation
Indices: 1722656--1722765 Score: 111
Period size: 24 Copynumber: 4.6 Consensus size: 24
1722646 AAATATTTTA
1722656 TCTGATTTCTGA-ATTGAATTCTGT
1 TCTGATTTCTGATA-TGAATTCTGT
* *
1722680 TCTGA-TAC-GTTACCTGAATTCTGT
1 TCTGATTTCTGATA--TGAATTCTGT
* *
1722704 TCTGA-TTCTGATCTGGATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
1722727 TCTGATATCTGATATGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
1722751 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
1722766 CTCTGTTTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.01
23 17 0.24
24 50 0.71
25 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:1726240 original size:18 final size:18
Alignment explanation
Indices: 1726214--1726249 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1726204 TCAAAAGGAC
*
1726214 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1726232 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1726250 CGGATGGCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1727384 original size:12 final size:12
Alignment explanation
Indices: 1727369--1727437 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
1727359 GATACGTTAC
1727369 CTGAATTCTGTT
1 CTGAATTCTGTT
*
1727381 CTG-ATTCTGAT
1 CTGAATTCTGTT
* *
1727392 CTGGATTTTGTT
1 CTGAATTCTGTT
*
1727404 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
*
1727416 ATGAATTCTGTT
1 CTGAATTCTGTT
* *
1727428 TTGATTTCTG
1 CTGAATTCTG
1727438 ATATCTCCGT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
11 12 0.27
12 31 0.69
13 2 0.04
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:1727427 original size:24 final size:23
Alignment explanation
Indices: 1727370--1727441 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 23
1727360 ATACGTTACC
*
1727370 TGAATTCTGTTCTGATTCTGATC
1 TGAATTCTGTTCTGATTCTGATA
* *
1727393 TGGATTTTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGAT-TCTGATA
*
1727417 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGA-TTCTGATA
1727441 T
1 T
1727442 CTCCGTTTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 14 0.34
24 26 0.63
25 1 0.02
ACGTcount: A:0.19, C:0.11, G:0.18, T:0.51
Consensus pattern (23 bp):
TGAATTCTGTTCTGATTCTGATA
Found at i:1730507 original size:16 final size:18
Alignment explanation
Indices: 1730486--1730519 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1730476 AGCATAATTT
1730486 GTTTA-TAAAA-AAATAA
1 GTTTATTAAAACAAATAA
1730502 GTTTATTAAAACAAATAA
1 GTTTATTAAAACAAATAA
1730520 AAGCTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (18 bp):
GTTTATTAAAACAAATAA
Found at i:1737626 original size:16 final size:18
Alignment explanation
Indices: 1737605--1737638 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1737595 AAGCATAATT
1737605 TGTTTA-TAAAA-AAATA
1 TGTTTATTAAAACAAATA
1737621 TGTTTATTAAAACAAATA
1 TGTTTATTAAAACAAATA
1737639 AAAGCTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (18 bp):
TGTTTATTAAAACAAATA
Found at i:1740004 original size:16 final size:18
Alignment explanation
Indices: 1739983--1740016 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1739973 AGCATAATTT
1739983 GTTTA-TAAAA-AAATAA
1 GTTTATTAAAACAAATAA
1739999 GTTTATTAAAACAAATAA
1 GTTTATTAAAACAAATAA
1740017 AAGCTACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (18 bp):
GTTTATTAAAACAAATAA
Found at i:1742275 original size:16 final size:18
Alignment explanation
Indices: 1742254--1742287 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1742244 AGCATAATTT
1742254 GTTTA-TAAAA-AAATAA
1 GTTTATTAAAACAAATAA
1742270 GTTTATTAAAACAAATAA
1 GTTTATTAAAACAAATAA
1742288 AAGCTACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (18 bp):
GTTTATTAAAACAAATAA
Found at i:1744543 original size:17 final size:18
Alignment explanation
Indices: 1744523--1744557 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1744513 AAGCATAATT
1744523 TGTTTA-TAAAAAAAATA
1 TGTTTATTAAAAAAAATA
*
1744540 TGTTTATTAAAACAAATA
1 TGTTTATTAAAAAAAATA
1744558 AAAGCTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
TGTTTATTAAAAAAAATA
Found at i:1746816 original size:18 final size:18
Alignment explanation
Indices: 1746795--1746830 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1746785 AAGCATAATT
1746795 TGTTTATAAAAAAAAATA
1 TGTTTATAAAAAAAAATA
* *
1746813 TGTTTATTAAAACAAATA
1 TGTTTATAAAAAAAAATA
1746831 AAAGCTACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (18 bp):
TGTTTATAAAAAAAAATA
Found at i:1753836 original size:17 final size:18
Alignment explanation
Indices: 1753816--1753850 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1753806 AAGCATAATT
1753816 TGTTTA-TAAAAAAAATA
1 TGTTTATTAAAAAAAATA
*
1753833 TGTTTATTAAAACAAATA
1 TGTTTATTAAAAAAAATA
1753851 AAAGCTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
TGTTTATTAAAAAAAATA
Found at i:1758491 original size:17 final size:18
Alignment explanation
Indices: 1758471--1758505 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1758461 AAGCATAATT
1758471 TGTTTA-TAAAAAAAATA
1 TGTTTATTAAAAAAAATA
*
1758488 TGTTTATTAAAACAAATA
1 TGTTTATTAAAAAAAATA
1758506 AAAGCTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
TGTTTATTAAAAAAAATA
Found at i:1762940 original size:45 final size:45
Alignment explanation
Indices: 1762871--1762962 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
1762861 ATAACAGCTG
1762871 ACCGTAAACTAGCAGATTTGGCATCAAGGGAGATCAACTACTTTT
1 ACCGTAAACTAGCAGATTTGGCATCAAGGGAGATCAACTACTTTT
* * *
1762916 ACCGTAAACTAGCAGATTTTGCATCAGGGGATATCAACTACTTTT
1 ACCGTAAACTAGCAGATTTGGCATCAAGGGAGATCAACTACTTTT
1762961 AC
1 AC
1762963 TTTGTACGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (45 bp):
ACCGTAAACTAGCAGATTTGGCATCAAGGGAGATCAACTACTTTT
Found at i:1772404 original size:15 final size:16
Alignment explanation
Indices: 1772380--1772412 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1772370 ATTGACGAGC
*
1772380 AAAATTTGTTTA-TAA
1 AAAATGTGTTTATTAA
1772395 AAAATGTGTTTATTAA
1 AAAATGTGTTTATTAA
1772411 AA
1 AA
1772413 CAAATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
AAAATGTGTTTATTAA
Found at i:1774781 original size:15 final size:16
Alignment explanation
Indices: 1774761--1774794 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1774751 GTATCACAAG
1774761 AAAAAAGTGATTA-TA
1 AAAAAAGTGATTATTA
*
1774776 AAAAAAGTGTTTATTA
1 AAAAAAGTGATTATTA
1774792 AAA
1 AAA
1774795 CAAATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (16 bp):
AAAAAAGTGATTATTA
Found at i:1777160 original size:16 final size:16
Alignment explanation
Indices: 1777139--1777173 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1777129 GTATCACAAG
1777139 AAAAAAAGTGATTA-T
1 AAAAAAAGTGATTATT
*
1777154 AAAAAAAGTGTTTATT
1 AAAAAAAGTGATTATT
1777170 AAAA
1 AAAA
1777174 CAAATAAAAG
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:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (16 bp):
AAAAAAAGTGATTATT
Found at i:1779528 original size:16 final size:16
Alignment explanation
Indices: 1779507--1779541 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1779497 GTATCACAAG
1779507 AAAAAAAGTGATTA-T
1 AAAAAAAGTGATTATT
*
1779522 AAAAAAAGTGTTTATT
1 AAAAAAAGTGATTATT
1779538 AAAA
1 AAAA
1779542 CAAATAAAAG
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:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (16 bp):
AAAAAAAGTGATTATT
Found at i:1781905 original size:15 final size:16
Alignment explanation
Indices: 1781885--1781918 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1781875 GTATCACAAG
1781885 AAAAAAGTGATTA-TA
1 AAAAAAGTGATTATTA
*
1781900 AAAAAAGTGTTTATTA
1 AAAAAAGTGATTATTA
1781916 AAA
1 AAA
1781919 CAAATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (16 bp):
AAAAAAGTGATTATTA
Found at i:1784283 original size:15 final size:16
Alignment explanation
Indices: 1784263--1784296 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1784253 GTATCACAAG
1784263 AAAAAAGTGATTA-TA
1 AAAAAAGTGATTATTA
*
1784278 AAAAAAGTGTTTATTA
1 AAAAAAGTGATTATTA
1784294 AAA
1 AAA
1784297 CAAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (16 bp):
AAAAAAGTGATTATTA
Found at i:1786673 original size:24 final size:24
Alignment explanation
Indices: 1786646--1786708 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
1786636 AACATAATTT
*
1786646 AGGTCAAGTATCATATGAGAATCC
1 AGGTCAAGTATCATATCAGAATCC
* *
1786670 AGGTCATGTATCATATCAGAATTC
1 AGGTCAAGTATCATATCAGAATCC
*
1786694 AGGTCAGGTATCATA
1 AGGTCAAGTATCATA
1786709 ACAAAATTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (24 bp):
AGGTCAAGTATCATATCAGAATCC
Found at i:1786716 original size:24 final size:24
Alignment explanation
Indices: 1786631--1786717 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
1786621 TATATCAAAA
* * *
1786631 ATCAAAACATAATTTAGGTCAAGT
1 ATCATAACAGAATTCAGGTCAAGT
** * *
1786655 ATCATATGAGAATCCAGGTCATGT
1 ATCATAACAGAATTCAGGTCAAGT
* *
1786679 ATCATATCAGAATTCAGGTCAGGT
1 ATCATAACAGAATTCAGGTCAAGT
*
1786703 ATCATAACAAAATTC
1 ATCATAACAGAATTC
1786718 GAATAAAAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (24 bp):
ATCATAACAGAATTCAGGTCAAGT
Found at i:1789821 original size:15 final size:16
Alignment explanation
Indices: 1789797--1789829 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1789787 TATCACAAGC
*
1789797 AAAATTTGTTTA-TAA
1 AAAATGTGTTTATTAA
1789812 AAAATGTGTTTATTAA
1 AAAATGTGTTTATTAA
1789828 AA
1 AA
1789830 CAAATAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
AAAATGTGTTTATTAA
Found at i:1813708 original size:80 final size:80
Alignment explanation
Indices: 1813438--1813690 Score: 380
Period size: 80 Copynumber: 3.1 Consensus size: 80
1813428 GGGTTCTATT
* * *
1813438 GGCCTACCCAAGGATATCCTTAGATCTGTAGGGTTACCTTAAGCACACAAAAAAGGGAACCAACC
1 GGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAGGGAACCAACC
*
1813503 TAAGGATATACCTTG
66 TAAGGATATGCCTTG
* * *
1813518 GGTCTACCCAAGGACATCCTTAGATCCGTAGAGTTACCTTAAGCACACAGCAAAAGGGAACCAAC
1 GGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAAC-AAAGGGAACCAAC
1813583 CTAAGGATATGCCTTG
65 CTAAGGATATGCCTTG
* * * * *
1813599 GGCCTACCCAAGGGCATCCCTAGATCCGTAGGGTTACCTTATGCATATAACAAAGGGAACCAACC
1 GGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAGGGAACCAACC
1813664 TAAGGATATGCCTTG
66 TAAGGATATGCCTTG
*
1813679 GGGCTACCCAAG
1 GGCCTACCCAAG
1813691 AAATTAGTTT
Statistics
Matches: 156, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 85 0.54
81 71 0.46
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (80 bp):
GGCCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAGGGAACCAACC
TAAGGATATGCCTTG
Found at i:1816287 original size:24 final size:24
Alignment explanation
Indices: 1816277--1816391 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
1816267 CATAAGTCAC
* * *
1816277 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
* *
1816301 GTCAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
1816325 GTCAAGTATCAGATCAGAATCAAT
1 GTCAAGTATCAGATCAGAATCCAT
*
1816349 GTC-AGATATCAAATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
1816373 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
1816392 ATCAAATCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 2 0.03
24 75 0.95
25 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.23
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:1816365 original size:48 final size:48
Alignment explanation
Indices: 1816260--1816396 Score: 152
Period size: 48 Copynumber: 2.8 Consensus size: 48
1816250 TATATCAAAA
* * * * *
1816260 ATCAAATCATAAGT-CACGTCAAGTATCATATCAAAATCCAGGTCAAGT
1 ATCAAATCAGAA-TCCAAGTCAAGTATCAGATCAGAATCAAGGTCAAGT
* * *
1816308 AACAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCAATGTC-AGAT
1 ATCAAATCAGAATCCAAGTCAAGTATCAGATCAGAATCAAGGTCAAG-T
*
1816356 ATCAAATCAGAATCCATGTCAAGTATCAGATCAGAAATCAA
1 ATCAAATCAGAATCCAAGTCAAGTATCAGATCAG-AATCAA
1816397 ATCAAAAATC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
47 3 0.04
48 66 0.88
49 6 0.08
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.23
Consensus pattern (48 bp):
ATCAAATCAGAATCCAAGTCAAGTATCAGATCAGAATCAAGGTCAAGT
Found at i:1816408 original size:72 final size:72
Alignment explanation
Indices: 1816253--1816408 Score: 174
Period size: 72 Copynumber: 2.2 Consensus size: 72
1816243 AAACGGATAT
* * *
1816253 ATCAAAAATCAAATCATAAGTCACGTCAAGTATCATATCAAAATCCAGGTCAAGTAACAGATCAG
1 ATCAAAAATCAGATCAGAAGTCACGTCAAGTATCAAATCAAAATCCAGGTCAAGTAACAGATCAG
1816318 AATCCAA
66 AATCCAA
* ** * * * *
1816325 GTCAAGTATCAGATCAGAA-TCAATGTC-AGATATCAAATCAGAATCCATGTCAAGTATCAGATC
1 ATCAAAAATCAGATCAGAAGTC-ACGTCAAG-TATCAAATCAAAATCCAGGTCAAGTAACAGATC
1816388 AGAAAT-CAA
64 AG-AATCCAA
1816397 ATCAAAAATCAG
1 ATCAAAAATCAG
1816409 GTAAAATATT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
71 4 0.06
72 61 0.90
73 3 0.04
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (72 bp):
ATCAAAAATCAGATCAGAAGTCACGTCAAGTATCAAATCAAAATCCAGGTCAAGTAACAGATCAG
AATCCAA
Found at i:1817947 original size:63 final size:63
Alignment explanation
Indices: 1817867--1817993 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
1817857 TGCTTTCTTG
* *
1817867 AACACTCTCTGATCTTGAAACGGTACTCTTAACAGACTTCTAGTATCCTTCACAAACTCTCCT
1 AACACTCCCTGATCTTGAAAAGGTACTCTTAACAGACTTCTAGTATCCTTCACAAACTCTCCT
* *
1817930 AACACTCCCTGATCTTGAAAATGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCTCCT
1 AACACTCCCTGATCTTGAAAAGGTACTCTTAACAGACTTCTAGTATCCTTCACAAACTCTCCT
1817993 A
1 A
1817994 GGATTAAAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (63 bp):
AACACTCCCTGATCTTGAAAAGGTACTCTTAACAGACTTCTAGTATCCTTCACAAACTCTCCT
Found at i:1818959 original size:18 final size:18
Alignment explanation
Indices: 1818936--1818994 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
1818926 CAATGGTCAA
1818936 CGGGTCAACGGGTAGGGT
1 CGGGTCAACGGGTAGGGT
**
1818954 CGGGTCAACGGGCCGGGT
1 CGGGTCAACGGGTAGGGT
*
1818972 CTGGTCAACGGGTCA-GGT
1 CGGGTCAACGGGT-AGGGT
1818990 CGGGT
1 CGGGT
1818995 TGTGACCGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.14, C:0.22, G:0.47, T:0.17
Consensus pattern (18 bp):
CGGGTCAACGGGTAGGGT
Found at i:1820222 original size:19 final size:20
Alignment explanation
Indices: 1820187--1820227 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
1820177 TTTTACAACT
*
1820187 TATAGAATATTAAATA-TAA
1 TATAGAATATAAAATATTAA
1820206 TATAGAATA-AAATATATTAA
1 TATAGAATATAAA-ATATTAA
1820226 TA
1 TA
1820228 ATACAGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 2 0.11
19 12 0.63
20 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
TATAGAATATAAAATATTAA
Found at i:1821518 original size:29 final size:29
Alignment explanation
Indices: 1821486--1821607 Score: 99
Period size: 29 Copynumber: 4.3 Consensus size: 29
1821476 CATTTTACAG
*
1821486 AAATAACACCTTTTTAAAAATAATTACCA
1 AAATAACACCTTTTTCAAAATAATTACCA
* ** *
1821515 AAATAACACCCTTTTCAATTTAATTCCCA
1 AAATAACACCTTTTTCAAAATAATTACCA
* ** * *
1821544 AAATAGCACCAGTTTCAAATTAATTCCCA
1 AAATAACACCTTTTTCAAAATAATTACCA
* *
1821573 AAATATCA--TTTTT-GAAA-AATTACCA
1 AAATAACACCTTTTTCAAAATAATTACCA
*
1821598 AAATACCACC
1 AAATAACACC
1821608 CATTTCGAAT
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
25 14 0.19
26 2 0.03
27 3 0.04
29 56 0.75
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.30
Consensus pattern (29 bp):
AAATAACACCTTTTTCAAAATAATTACCA
Found at i:1821621 original size:83 final size:83
Alignment explanation
Indices: 1821507--1821660 Score: 202
Period size: 83 Copynumber: 1.9 Consensus size: 83
1821497 TTTTAAAAAT
* ***
1821507 AATTACCAAAATAACACCCTTTTCAATTTAATTCCCAAAATAGCACCAGTTTCAAATTAATTCCC
1 AATTACCAAAATAACACCCATTTCAATTTAATTCCCAAAATAGCACCAAAATCAAATTAATTCCC
1821572 AAAATATCATTTTTGAAA
66 AAAATATCATTTTTGAAA
* * * * *
1821590 AATTACCAAAATACCACCCATTTCGAA-TTAATTCCTAGAATAGCCCCAAAATCGAATTAATTCC
1 AATTACCAAAATAACACCCATTTC-AATTTAATTCCCAAAATAGCACCAAAATCAAATTAATTCC
*
1821654 CAGAATA
65 CAAAATA
1821661 GCACCGGTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 58 0.97
84 2 0.03
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.29
Consensus pattern (83 bp):
AATTACCAAAATAACACCCATTTCAATTTAATTCCCAAAATAGCACCAAAATCAAATTAATTCCC
AAAATATCATTTTTGAAA
Found at i:1821622 original size:29 final size:28
Alignment explanation
Indices: 1821506--1821622 Score: 80
Period size: 29 Copynumber: 4.2 Consensus size: 28
1821496 TTTTTAAAAA
*
1821506 TAATTACCAAAATAACACCCTTTTC-AATT
1 TAATTACCAAAATAACA-CCATTTCGAA-T
* * *
1821535 TAATTCCCAAAATAGCACCAGTTTCAAAT
1 TAATTACCAAAATAACACCA-TTTCGAAT
* * * *
1821564 TAATTCCCAAAATATCA--TTTTTGAA-
1 TAATTACCAAAATAACACCATTTCGAAT
* *
1821589 AAATTACCAAAATACCACCCATTTCGAAT
1 TAATTACCAAAATAACA-CCATTTCGAAT
1821618 TAATT
1 TAATT
1821623 CCTAGAATAG
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
25 14 0.20
26 5 0.07
28 8 0.12
29 40 0.58
30 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.32
Consensus pattern (28 bp):
TAATTACCAAAATAACACCATTTCGAAT
Found at i:1821688 original size:17 final size:18
Alignment explanation
Indices: 1821666--1821705 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1821656 GAATAGCACC
*
1821666 GGTCAAC-GGTCGTGTCG
1 GGTCAACGGGTCGGGTCG
1821683 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
1821701 GGTCA
1 GGTCA
1821706 TGACCGATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.12, C:0.23, G:0.45, T:0.20
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:1827481 original size:29 final size:29
Alignment explanation
Indices: 1827448--1827514 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
1827438 ATTTAATCCC
1827448 CAAATTTCACCAATTTTCATAATTAACCT
1 CAAATTTCACCAATTTTCATAATTAACCT
1827477 CAAATTTCACCAATTTTCATAATTAACCT
1 CAAATTTCACCAATTTTCATAATTAACCT
1827506 CAAATTTCA
1 CAAATTTCA
1827515 ATTAAACATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (29 bp):
CAAATTTCACCAATTTTCATAATTAACCT
Found at i:1828547 original size:24 final size:24
Alignment explanation
Indices: 1828537--1828651 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
1828527 CATAATTCAC
* * *
1828537 GTCAAGTATCATATCAAAATCTAG
1 GTCAAGTATCATATCAGAATCCAT
* *
1828561 GTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCATATCAGAATCCAT
*
1828585 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
1828609 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCATATCAGAATCCAT
*
1828633 GTCAAGTATCAAATCAGAA
1 GTCAAGTATCATATCAGAA
1828652 ATCAAATCGA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.03
24 76 0.95
25 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:1828668 original size:72 final size:71
Alignment explanation
Indices: 1828517--1828668 Score: 155
Period size: 72 Copynumber: 2.1 Consensus size: 71
1828507 GCATATATCA
* * * * *
1828517 AAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCTAGGTCAAGTAACATATCAGAATC
1 AAAATCAGATCAGAATCCACGTCAAGTATCATATCAAAATCCAGGTCAAGTAACAAATCAGAATC
*
1828582 CAAGTC
66 CAAATC
* * * * *
1828588 AAGTATCAGATCAGAATCCATGTC-AGATATCATATCAGAATCCATGTCAAGTATCAAATCAGAA
1 AA-AATCAGATCAGAATCCACGTCAAG-TATCATATCAAAATCCAGGTCAAGTAACAAATCAG-A
1828652 AT-CAAATC
63 ATCCAAATC
1828660 GAAAATCAG
1 -AAAATCAG
1828669 GTAAAATATT
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
71 4 0.06
72 56 0.86
73 5 0.08
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (71 bp):
AAAATCAGATCAGAATCCACGTCAAGTATCATATCAAAATCCAGGTCAAGTAACAAATCAGAATC
CAAATC
Found at i:1832314 original size:81 final size:80
Alignment explanation
Indices: 1832067--1832392 Score: 386
Period size: 81 Copynumber: 4.0 Consensus size: 80
1832057 CCATAACTGC
* * * *
1832067 ATCCATAGGGATTGCCCTCAGCACATAGAAAAAGGGGAGCCAACCTAAGGATATACCTTGGGGCC
1 ATCCATAGGG-TTACCTTAAGCACATA-AAAAA-GGGAACCAACCTAAGGATATACCTT-GGGCC
*
1832132 TACCCAAGGATATCCTTAG
62 TACCCAAGGACATCCTTAG
* * ** *
1832151 ATCCGTAGGGTTACCTTAAGTACACATCAAAAATAGAACCAACCTAAGGATATACCTTGGGTCTA
1 ATCCATAGGGTTACCTTAAG--CACATAAAAAAGGGAACCAACCTAAGGATATACCTTGGGCCTA
1832216 CCCAAGGACATCCTTAG
64 CCCAAGGACATCCTTAG
* *
1832233 ATCCATAGGGTTACCTTAAGCACATAACAAAAGGGAACCAACCTTAGGATATGCC-TGGAGCCTA
1 ATCCATAGGGTTACCTTAAGCACATAA-AAAAGGGAACCAACCTAAGGATATACCTTGG-GCCTA
* *
1832297 CCCAAGGGCATCTTTAG
64 CCCAAGGACATCCTTAG
* * ** *
1832314 ATCCGTAGGGTTACCTTATGCACATAGTAAAGGGAACCAACCTAAGGATATGCCTTGGGCCTACC
1 ATCCATAGGGTTACCTTAAGCACATAAAAAAGGGAACCAACCTAAGGATATACCTTGGGCCTACC
*
1832379 CAA-GATATCCTTAG
66 CAAGGACATCCTTAG
1832393 GTCCGTAAGG
Statistics
Matches: 210, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
79 8 0.04
80 44 0.21
81 69 0.33
82 41 0.20
83 29 0.14
84 14 0.07
85 5 0.02
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (80 bp):
ATCCATAGGGTTACCTTAAGCACATAAAAAAGGGAACCAACCTAAGGATATACCTTGGGCCTACC
CAAGGACATCCTTAG
Found at i:1832316 original size:163 final size:163
Alignment explanation
Indices: 1832067--1832392 Score: 419
Period size: 161 Copynumber: 2.0 Consensus size: 163
1832057 CCATAACTGC
* * * *
1832067 ATCCATAGGGATTGCCCTCAGCACATAGAAAAAGGGGAGCCAACCTAAGGATATACCTTGGGGCC
1 ATCCATAGGGATTACCCTAAGCACATAGAAAAAGGGGAACCAACCTAAGGATATACCTTGGAGCC
* *
1832132 TACCCAAGGATATCCTTAGATCCGTAGGGTTACCTTAAGTACACATCA-AAAATAGAACCAACCT
66 TACCCAAGGACATCCTTAGATCCGTAGGGTTACCTT-A-TACACAT-AGAAAAGAGAACCAACCT
*
1832196 AAGGATATACCTTGGGTCTACCCAAGGACATCCTTAG
128 AAGGATATACCTTGGGCCTACCCAA-GACATCCTTAG
* * *
1832233 ATCCATAGGG-TTACCTTAAGCACATA-ACAAAA-GGGAACCAACCTTAGGATATGCC-TGGAGC
1 ATCCATAGGGATTACCCTAAGCACATAGA-AAAAGGGGAACCAACCTAAGGATATACCTTGGAGC
* * * * *
1832294 CTACCCAAGGGCATCTTTAGATCCGTAGGGTTACCTTATGCACATAGTAAAGGGAACCAACCTAA
65 CTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTATACACATAGAAAAGAGAACCAACCTAA
* *
1832359 GGATATGCCTTGGGCCTACCCAAGATATCCTTAG
130 GGATATACCTTGGGCCTACCCAAGACATCCTTAG
1832393 GTCCGTAAGG
Statistics
Matches: 141, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
160 11 0.08
161 42 0.30
162 1 0.01
163 39 0.28
164 21 0.15
165 17 0.12
166 10 0.07
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (163 bp):
ATCCATAGGGATTACCCTAAGCACATAGAAAAAGGGGAACCAACCTAAGGATATACCTTGGAGCC
TACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTATACACATAGAAAAGAGAACCAACCTAAG
GATATACCTTGGGCCTACCCAAGACATCCTTAG
Found at i:1836089 original size:111 final size:110
Alignment explanation
Indices: 1835888--1836095 Score: 285
Period size: 111 Copynumber: 1.9 Consensus size: 110
1835878 AAATGTTCTG
* * * *
1835888 CCAACTTTGAAATTTTACAATTTAATCCCCAATTTCTTCCAAAATACCAATTAAATCTAATACTT
1 CCAACTGTGAAATTTTACAATTTAATCCCCAATTTCTTCCAAAATACCAATTAAATCCAACACAT
* *
1835953 TAAAATTACTAAAATTTAGCCCCTAAATTGGGATGCTACGGTCTA
66 TAAAATTACTAAAATTTAACACCTAAATTGGGATGCTACGGTCTA
* * *
1835998 CCAACTGTGAAAATTTT-CAATTTAATCCTCAATTTTCTTCCCAAAATACCAATTACATCCACCA
1 CCAACTGTG-AAATTTTACAATTTAATCCCCAA-TTTCTT-CCAAAATACCAATTAAATCCAACA
*
1836062 CATTATAATT-CTAAAATTTAACACCTAAATTGGG
63 CATTAAAATTACTAAAATTTAACACCTAAATTGGG
1836096 GTGTTACAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
110 22 0.26
111 35 0.41
112 28 0.33
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (110 bp):
CCAACTGTGAAATTTTACAATTTAATCCCCAATTTCTTCCAAAATACCAATTAAATCCAACACAT
TAAAATTACTAAAATTTAACACCTAAATTGGGATGCTACGGTCTA
Found at i:1837280 original size:24 final size:24
Alignment explanation
Indices: 1837248--1837318 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 24
1837238 TTTCGATTTA
* *
1837248 AATTCTGTTCTGATTTCTGATCTG
1 AATTATGTTCTGATTTCTGATATG
* **
1837272 GATTATGTTCTGACATCTGATATG
1 AATTATGTTCTGATTTCTGATATG
* *
1837296 AATTCTGTTTTGATTTCTGATAT
1 AATTATGTTCTGATTTCTGATAT
1837319 CTCCGTTTAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (24 bp):
AATTATGTTCTGATTTCTGATATG
Found at i:1838799 original size:20 final size:20
Alignment explanation
Indices: 1838774--1838812 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1838764 AAAATTGTGT
1838774 ATCGATGCACTGCTACAGTC
1 ATCGATGCACTGCTACAGTC
*
1838794 ATCGATGCACTGCTTCAGT
1 ATCGATGCACTGCTACAGT
1838813 ATATTTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (20 bp):
ATCGATGCACTGCTACAGTC
Found at i:1839420 original size:59 final size:59
Alignment explanation
Indices: 1839321--1839432 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
1839311 ACTTCCCTTT
* ** * *
1839321 CATTTTAGCACACAAAGTGCCCTATTCGAATATCCGTACCATTAGTAGGATTTTGTTGC
1 CATTTTAGCACACAAAGTGCCCGATGAGAAAATCCATACCATTAGTAGGATTTTGTTGC
* *
1839380 CATTTTAGCACATGAAA-TGCCCGATGAGAAAATCCATACCATTAGTATGATTT
1 CATTTTAGCACA-CAAAGTGCCCGATGAGAAAATCCATACCATTAGTAGGATTT
1839433 CCTTATCCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 42 0.93
60 3 0.07
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (59 bp):
CATTTTAGCACACAAAGTGCCCGATGAGAAAATCCATACCATTAGTAGGATTTTGTTGC
Found at i:1839507 original size:59 final size:58
Alignment explanation
Indices: 1839423--1839598 Score: 151
Period size: 59 Copynumber: 3.0 Consensus size: 58
1839413 CCATACCATT
* *
1839423 AGTATGATTTCCTTATCC-TTGTAGCACCCTTAGTGCTTTATTTGGAAATTCATACACTC
1 AGTATGA-TTCCTTA-CCATTTTAGCACCCTTAGTGCTTTATATGGAAATTCATACACTC
* * ** * * *
1839482 AGTATGATTCCCTTACCATTTTAGCA-CATATAATGCCCTATCTGGAAA-TCTATATATTC
1 AGTATGATT-CCTTACCATTTTAGCACCCT-TAGTGCTTTATATGGAAATTC-ATACACTC
* * * * *
1839541 AATATGAATTCCTTATCATTTTAGCACACTCAGTGCTTCATATGGAAATTCATACACT
1 AGTATG-ATTCCTTACCATTTTAGCACCCTTAGTGCTTTATATGGAAATTCATACACT
1839599 TGTTAGAACC
Statistics
Matches: 90, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
58 8 0.09
59 76 0.84
60 6 0.07
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (58 bp):
AGTATGATTCCTTACCATTTTAGCACCCTTAGTGCTTTATATGGAAATTCATACACTC
Found at i:1841765 original size:23 final size:23
Alignment explanation
Indices: 1841721--1841766 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1841711 GTGGACTGGT
* *
1841721 TTGACCCGTTGACCCTATCTGAC
1 TTGACCCGTTGACCCGACCTGAC
1841744 TTGACCCGTTGACCCGACCTGAC
1 TTGACCCGTTGACCCGACCTGAC
1841767 CCGTTGATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.37, G:0.20, T:0.26
Consensus pattern (23 bp):
TTGACCCGTTGACCCGACCTGAC
Found at i:1848435 original size:19 final size:18
Alignment explanation
Indices: 1848384--1848432 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
1848374 AATCTCTTTA
*
1848384 ATTTGTTTATTTAATTGTT
1 ATTT-TTTATTTAATTCTT
*
1848403 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTCTT
1848422 ATTTTTTATTT
1 ATTTTTTATTT
1848433 TAAAAACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTAATTCTT
Found at i:1857495 original size:24 final size:24
Alignment explanation
Indices: 1857468--1857541 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 24
1857458 TATATCAAAA
*
1857468 ATCAAAACATAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAAGTCAAGT
* * *
1857492 ATCAGATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAAGTCAAGT
* * * *
1857516 ATCAGATCAAAATTCAGGTCAAGT
1 ATCAAAACAAAATCCAAGTCAAGT
1857540 AT
1 AT
1857542 TCGATCAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.23
Consensus pattern (24 bp):
ATCAAAACAAAATCCAAGTCAAGT
Found at i:1857547 original size:24 final size:25
Alignment explanation
Indices: 1857478--1857590 Score: 144
Period size: 24 Copynumber: 4.7 Consensus size: 25
1857468 ATCAAAACAT
*
1857478 AATCCAAGTCAAGTA-TCAGATCAA
1 AATCCAGGTCAAGTATTCAGATCAA
1857502 AATCCAGGTCAAGTA-TCAGATCAA
1 AATCCAGGTCAAGTATTCAGATCAA
* *
1857526 AATTCAGGTCAAGTATTC-GATCAG
1 AATCCAGGTCAAGTATTCAGATCAA
* *
1857550 AATCCAGGTCAAGTA-TCCGATCAG
1 AATCCAGGTCAAGTATTCAGATCAA
*
1857574 AATCCAGGTCAGGTATT
1 AATCCAGGTCAAGTATT
1857591 ATAATAGAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
23 2 0.02
24 76 0.94
25 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (25 bp):
AATCCAGGTCAAGTATTCAGATCAA
Found at i:1862169 original size:24 final size:24
Alignment explanation
Indices: 1862142--1862217 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
1862132 AACGGATATA
*
1862142 TCAAAAATCAAAACATAATCCAGG
1 TCAAAAATCAAAACAAAATCCAGG
** * *
1862166 TCAAGTATCAGATCAAAATCCAGG
1 TCAAAAATCAAAACAAAATCCAGG
** * * *
1862190 TCAAGTATCAGATCAAAATTCAGG
1 TCAAAAATCAAAACAAAATCCAGG
1862214 TCAA
1 TCAA
1862218 GTATTTGATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAAAATCCAGG
Found at i:1862218 original size:24 final size:24
Alignment explanation
Indices: 1862158--1862269 Score: 161
Period size: 24 Copynumber: 4.7 Consensus size: 24
1862148 ATCAAAACAT
1862158 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAA
1862182 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAA
* ** *
1862206 AATTCAGGTCAAGTATTTGATCAG
1 AATCCAGGTCAAGTATCAGATCAA
* *
1862230 AATCCAGGTCAAGTATCTGATCAG
1 AATCCAGGTCAAGTATCAGATCAA
*
1862254 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
1862270 TATAATAGAA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 81 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAA
Found at i:1866751 original size:48 final size:49
Alignment explanation
Indices: 1866682--1866793 Score: 165
Period size: 48 Copynumber: 2.3 Consensus size: 49
1866672 TCAAAACATT
1866682 ATCCAGGTCAAGTA-TCAGATCAAAATCCAGGTCAAGTATCAGATCAAA
1 ATCCAGGTCAAGTATTCAGATCAAAATCCAGGTCAAGTATCAGATCAAA
* * * *
1866730 ATTCAGGTCAAGTATTC-GATCAGAATCCAGGTCAAGTATCTGATCAGA
1 ATCCAGGTCAAGTATTCAGATCAAAATCCAGGTCAAGTATCAGATCAAA
*
1866778 ATCCAGGTCATGTATT
1 ATCCAGGTCAAGTATT
1866794 ATAATAGAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 55 0.96
49 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (49 bp):
ATCCAGGTCAAGTATTCAGATCAAAATCCAGGTCAAGTATCAGATCAAA
Found at i:1866802 original size:24 final size:24
Alignment explanation
Indices: 1866682--1866802 Score: 97
Period size: 24 Copynumber: 5.0 Consensus size: 24
1866672 TCAAAACATT
* *
1866682 ATCCAGGTCAAGTATCA-GATCAAA
1 ATCCAGGTCAAGTAT-ATAATCAGA
* *
1866706 ATCCAGGTCAAGTATCA-GATCAAA
1 ATCCAGGTCAAGTAT-ATAATCAGA
* *
1866730 ATTCAGGTCAAGTAT-TCGATCAGA
1 ATCCAGGTCAAGTATAT-AATCAGA
* *
1866754 ATCCAGGTCAAGTATCTGATCAGA
1 ATCCAGGTCAAGTATATAATCAGA
*
1866778 ATCCAGGTCATGTATTATAAT-AGA
1 ATCCAGGTCAAGTA-TATAATCAGA
1866802 A
1 A
1866803 ATCAAATCGG
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
24 82 0.94
25 5 0.06
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (24 bp):
ATCCAGGTCAAGTATATAATCAGA
Found at i:1872683 original size:22 final size:25
Alignment explanation
Indices: 1872650--1872698 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 25
1872640 TTAGGGCCCG
1872650 AATTCTTTAAAA-GATGT-AA-CAT
1 AATTCTTTAAAACGATGTGAAGCAT
1872672 AATT-TTTAAAAACGATGTGAAGCAT
1 AATTCTTT-AAAACGATGTGAAGCAT
1872697 AA
1 AA
1872699 AATCAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.13
22 8 0.35
23 5 0.22
24 2 0.09
25 5 0.22
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (25 bp):
AATTCTTTAAAACGATGTGAAGCAT
Found at i:1873153 original size:53 final size:53
Alignment explanation
Indices: 1873094--1873198 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
1873084 AACTAGTAAA
1873094 ACTATTTTTAGTTTTTAAAATTTCTATTTCTTTAATACACCGTGCTTAACTTT
1 ACTATTTTTAGTTTTTAAAATTTCTATTTCTTTAATACACCGTGCTTAACTTT
1873147 ACTATTTTTAGTTTTTAAAATTTCTATTTCTTTAATACACCGTGCTTAACTT
1 ACTATTTTTAGTTTTTAAAATTTCTATTTCTTTAATACACCGTGCTTAACTT
1873199 GAATCATGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (53 bp):
ACTATTTTTAGTTTTTAAAATTTCTATTTCTTTAATACACCGTGCTTAACTTT
Found at i:1875649 original size:18 final size:19
Alignment explanation
Indices: 1875626--1875664 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1875616 TTTAAGTAGT
*
1875626 AATAAAAACGATT-AAGTA
1 AATAAAAACAATTAAAGTA
*
1875644 AATAAAAGCAATTAAAGTA
1 AATAAAAACAATTAAAGTA
1875663 AA
1 AA
1875665 AAATAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (19 bp):
AATAAAAACAATTAAAGTA
Found at i:1877410 original size:21 final size:20
Alignment explanation
Indices: 1877384--1877430 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1877374 CCTTTTTTTC
1877384 TTTTTTTTT-CATTCAAACT
1 TTTTTTTTTGCATTCAAACT
*
1877403 ATTTTTTTTTGCATTCAACCT
1 -TTTTTTTTTGCATTCAAACT
1877424 TTTTTTT
1 TTTTTTT
1877431 CGATGGAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.17, C:0.15, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTTTTTGCATTCAAACT
Found at i:1883355 original size:24 final size:24
Alignment explanation
Indices: 1883332--1883450 Score: 134
Period size: 24 Copynumber: 5.0 Consensus size: 24
1883322 AAACATAAAT
*
1883332 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
* * *
1883356 TAGGTTAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
* *
1883380 CAAGTCAACTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
1883404 CATGTC-AGATATCAGATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
1883428 CATGTCAAGTATCAGATCAGAAT
1 CAGGTCAAGTATCAGATCAGAAT
1883451 TCAAATCAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
23 4 0.05
24 75 0.93
25 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:1883459 original size:24 final size:24
Alignment explanation
Indices: 1883335--1883468 Score: 128
Period size: 24 Copynumber: 5.6 Consensus size: 24
1883325 CATAAATCAG
* * *
1883335 GTCAAGTATCATATCAGAAAT-TAG
1 GTCAAGTATCAGATCAG-AATCCAA
* *
1883359 GTTAAGTAACAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
* *
1883383 GTCAACTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAA
*
1883407 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAA
*
1883431 GTCAAGTATCAGATCAGAATTCAA
1 GTCAAGTATCAGATCAGAATCCAA
* **
1883455 ATCAAAAATCAGAT
1 GTCAAGTATCAGAT
1883469 AAAATATTCA
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
23 4 0.04
24 86 0.93
25 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Done.