Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 5 of 211
Found at i:1473889 original size:20 final size:20
Alignment explanation
Indices: 1473864--1473913 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1473854 TGGCTTAAAA
1473864 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1473884 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1473901 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1473914 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1478526 original size:20 final size:20
Alignment explanation
Indices: 1478501--1478550 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1478491 TGGCTTAAAA
1478501 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1478521 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1478538 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1478551 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1481912 original size:18 final size:18
Alignment explanation
Indices: 1481889--1481927 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1481879 CTCAATCTGT
1481889 TTCGATATCATATATGAG
1 TTCGATATCATATATGAG
*
1481907 TTCGATATCATATATTAG
1 TTCGATATCATATATGAG
1481925 TTC
1 TTC
1481928 CCATGCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (18 bp):
TTCGATATCATATATGAG
Found at i:1497953 original size:19 final size:19
Alignment explanation
Indices: 1497912--1497972 Score: 79
Period size: 19 Copynumber: 3.1 Consensus size: 19
1497902 ATCTAATTAC
1497912 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
1497933 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
1497952 AAATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
1497971 AA
1 AA
1497973 TAAATAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.49
20 7 0.19
21 12 0.32
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:1509998 original size:51 final size:51
Alignment explanation
Indices: 1509881--1510030 Score: 176
Period size: 51 Copynumber: 2.9 Consensus size: 51
1509871 GAGTTACGAT
* * *
1509881 ATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG
1 ATGGTTTT-GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACCG
* * * * **
1509933 A-GAGCTTTGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGTG
1 ATG-GTTTTGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACCG
* *
1509984 ATGGTTTTGGTCACATGTGTAGTACTAAATGTAGGCTACTATGTGTA
1 ATGGTTTTGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
1510031 CCGGATAACT
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
51 75 0.93
52 6 0.07
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (51 bp):
ATGGTTTTGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAACCG
Found at i:1510072 original size:102 final size:103
Alignment explanation
Indices: 1509881--1510073 Score: 230
Period size: 102 Copynumber: 1.9 Consensus size: 103
1509871 GAGTTACGAT
* * * *
1509881 ATGGTTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAGAGCTTTGATCA
1 ATGGTTTTAGGTCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAGAACTTGGATCA
* *
1509946 CATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGTG
66 CAAGTGTGGTACCAAGTGCAGGCCACTATGTGTAAGTG
* * * * *
1509984 ATGGTTTT-GGTCACATGTGTAGTACTAAATGTAGGCTACTATGTGTACCGGATAACTTCGGCT-
1 ATGGTTTTAGGTCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAGAACTT-GGATC
* *
1510047 ACAAAG-GTGGTACCATGTGCTGGCCAC
65 AC-AAGTGTGGTACCAAGTGCAGGCCAC
1510074 CGTGTATCTG
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
102 63 0.84
103 12 0.16
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (103 bp):
ATGGTTTTAGGTCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAGAACTTGGATCA
CAAGTGTGGTACCAAGTGCAGGCCACTATGTGTAAGTG
Found at i:1524282 original size:39 final size:39
Alignment explanation
Indices: 1524223--1524304 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
1524213 TTGCAAGTTG
1524223 CCAATAATTAACACACTGTTACTGCCCTGCCCAAAGCTA
1 CCAATAATTAACACACTGTTACTGCCCTGCCCAAAGCTA
* * *
1524262 CCAATAATTAACACAGTGTTAGTGGCCTGCCCAAAGCTA
1 CCAATAATTAACACACTGTTACTGCCCTGCCCAAAGCTA
1524301 CCAA
1 CCAA
1524305 AGAAAGTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.22
Consensus pattern (39 bp):
CCAATAATTAACACACTGTTACTGCCCTGCCCAAAGCTA
Found at i:1555184 original size:20 final size:20
Alignment explanation
Indices: 1555159--1555196 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1555149 TCCCATTAAA
1555159 AAGTTTT-ATTATAATTAATT
1 AAGTTTTAATTA-AATTAATT
1555179 AAGTTTTAATTAAATTAA
1 AAGTTTTAATTAAATTAA
1555197 CATCTGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AAGTTTTAATTAAATTAATT
Found at i:1559104 original size:44 final size:44
Alignment explanation
Indices: 1559027--1559110 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
1559017 GTCAACAGAT
*
1559027 AATTTTAAAATTATAAAATATTCAACAAATCAAAATAAATTTAA
1 AATTTTAAAATTATAAAATATTCAACAAATCAAAAAAAATTTAA
* *
1559071 AATTTTAAAAATTATAAAA-AGTTC-ATAATTCAAAAAAAAT
1 AATTTT-AAAATTATAAAATA-TTCAACAAATCAAAAAAAAT
1559111 AGCATGAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
44 20 0.57
45 15 0.43
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (44 bp):
AATTTTAAAATTATAAAATATTCAACAAATCAAAAAAAATTTAA
Found at i:1562086 original size:21 final size:21
Alignment explanation
Indices: 1562060--1562100 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1562050 TAACGGGACC
1562060 GCTGATGTGG-CAAGTTAACTA
1 GCTGATGTGGCCAA-TTAACTA
1562081 GCTGATGTGGCCAATTAACT
1 GCTGATGTGGCCAATTAACT
1562101 TGCCACATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCCAATTAACTA
Found at i:1568025 original size:36 final size:36
Alignment explanation
Indices: 1567978--1568067 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 36
1567968 CCCAACTACT
* * *
1567978 GTATACGTGAACAGTACCATATATGTGAATAGTGTC
1 GTATACGTGAACAGTACCATATACGTAAATAGTGCC
* *
1568014 GTATACGTGAACAGTATCGTATACGTAAATAGTGCC
1 GTATACGTGAACAGTACCATATACGTAAATAGTGCC
*
1568050 GTATACGTGAATAGTACC
1 GTATACGTGAACAGTACC
1568068 GTAAACGGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (36 bp):
GTATACGTGAACAGTACCATATACGTAAATAGTGCC
Found at i:1568069 original size:18 final size:18
Alignment explanation
Indices: 1567978--1568070 Score: 105
Period size: 18 Copynumber: 5.2 Consensus size: 18
1567968 CCCAACTACT
*
1567978 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* * **
1567996 ATATATGTGAATAGTGTC
1 GTATACGTGAATAGTACC
* *
1568014 GTATACGTGAACAGTATC
1 GTATACGTGAATAGTACC
* *
1568032 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
1568050 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
1568068 GTA
1 GTA
1568071 AACGGTCGTA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:1573568 original size:6 final size:6
Alignment explanation
Indices: 1573557--1573664 Score: 207
Period size: 6 Copynumber: 18.0 Consensus size: 6
1573547 AAGGATTTAA
1573557 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
1573605 TATATG TATATG CATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1573653 TATATG TATATG
1 TATATG TATATG
1573665 AATCTTACTC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 100 1.00
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:1577242 original size:6 final size:6
Alignment explanation
Indices: 1577231--1577260 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1577221 TCGTCAATCA
*
1577231 CCGTTG CCGTTG CCGTTG CCGTTT CCGTTG
1 CCGTTG CCGTTG CCGTTG CCGTTG CCGTTG
1577261 ATACCTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.33, G:0.30, T:0.37
Consensus pattern (6 bp):
CCGTTG
Found at i:1584104 original size:24 final size:24
Alignment explanation
Indices: 1584059--1584104 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1584049 TCCTTATGCA
*
1584059 TGCATGTATGTATGTTGTTTGAAT
1 TGCATGTATGTATGTTGATTGAAT
1584083 TGCATGTGATGTATG-TGATTGA
1 TGCATGT-ATGTATGTTGATTGA
1584105 CCTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (24 bp):
TGCATGTATGTATGTTGATTGAAT
Found at i:1584825 original size:26 final size:26
Alignment explanation
Indices: 1584796--1584848 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
1584786 AAGTTTGTGA
*
1584796 GGATTTAAACAAAAATATAAATTTGG
1 GGATTTAAACAAAAATATAAACTTGG
*
1584822 GGATTTAAATAAAAATATAAACTTGG
1 GGATTTAAACAAAAATATAAACTTGG
1584848 G
1 G
1584849 TTAGAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (26 bp):
GGATTTAAACAAAAATATAAACTTGG
Found at i:1592663 original size:20 final size:20
Alignment explanation
Indices: 1592638--1592677 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1592628 CGTAAAATGA
*
1592638 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
1592658 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
1592678 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:1592667 original size:34 final size:35
Alignment explanation
Indices: 1592623--1592689 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
1592613 CAGTAAGATG
* *
1592623 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
1592657 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
1592690 CTGCTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:1593844 original size:18 final size:16
Alignment explanation
Indices: 1593793--1593844 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
1593783 TGTTAAGATG
* *
1593793 ATTATATAAAAAATTTT
1 ATTAAATAAAAAA-TAT
*
1593810 AATAAATAAAAAATAT
1 ATTAAATAAAAAATAT
1593826 ATTAAATTAAAATAATAT
1 ATTAAA-TAAAA-AATAT
1593844 A
1 A
1593845 AATATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 7 0.24
17 16 0.55
18 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTAAATAAAAAATAT
Found at i:1603667 original size:31 final size:31
Alignment explanation
Indices: 1603603--1603668 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
1603593 AACTGCCCAA
* *
1603603 TGACTTAAATAAAAACTTTTCAATAGTTTAG
1 TGACTTAAATAAAAACTTTTCAATAGCTCAG
* *
1603634 TGACTTAAATGAAAAC-TTTCGAATTGCTCAG
1 TGACTTAAATAAAAACTTTTC-AATAGCTCAG
1603665 TGAC
1 TGAC
1603669 CATTTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTCAATAGCTCAG
Found at i:1608675 original size:14 final size:14
Alignment explanation
Indices: 1608643--1608686 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
1608633 ATTCTTAACA
1608643 AATATTTAGATT-A-
1 AATATTTA-ATTAAT
1608656 AATATTTAATTAAT
1 AATATTTAATTAAT
1608670 AATATTTAATTAAT
1 AATATTTAATTAAT
1608684 AAT
1 AAT
1608687 TTAAATGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
14 17 0.59
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
AATATTTAATTAAT
Found at i:1616293 original size:3 final size:3
Alignment explanation
Indices: 1616287--1616323 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
1616277 AATATTATTA
**
1616287 AAT AAT AAT TTT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1616324 TTATTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:1618565 original size:24 final size:25
Alignment explanation
Indices: 1618497--1618558 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
1618487 CAAACATGCA
1618497 AACGGGAAGCTCAAATGAGCCATGT
1 AACGGGAAGCTCAAATGAGCCATGT
1618522 AACGGGAAGCTCAAATGAGCCAT-T
1 AACGGGAAGCTCAAATGAGCCATGT
*
1618546 AACGAGAAGCTCA
1 AACGGGAAGCTCA
1618559 TACGAGCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 13 0.36
25 23 0.64
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.15
Consensus pattern (25 bp):
AACGGGAAGCTCAAATGAGCCATGT
Found at i:1618651 original size:27 final size:25
Alignment explanation
Indices: 1618619--1618668 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
1618609 GAGAGCTAAA
1618619 TAATCGGAAAGCTCATGAAAGAGCCTT
1 TAATCGGAAAGCTC-TG-AAGAGCCTT
*
1618646 TAATCGGGAAGCTCTGAAGAGCC
1 TAATCGGAAAGCTCTGAAGAGCC
1618669 ATATATCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
27 13 0.59
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
TAATCGGAAAGCTCTGAAGAGCCTT
Found at i:1618676 original size:25 final size:26
Alignment explanation
Indices: 1618587--1618678 Score: 77
Period size: 25 Copynumber: 3.6 Consensus size: 26
1618577 AGGTCCAAGT
*
1618587 GAGCCA-AT-ATCGGGAAGCT-TCGGA
1 GAGCCATATAATCGGGAAGCTCT-GAA
* * *
1618611 GAGCTAAATAATCGGAAAGCTCATGAAA
1 GAGCCATATAATCGGGAAGCTC-TG-AA
*
1618639 GAGCC-TTTAATCGGGAAGCTCTGAA
1 GAGCCATATAATCGGGAAGCTCTGAA
1618664 GAGCCATAT-ATCGGG
1 GAGCCATATAATCGGG
1618679 TCGCTCATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
24 5 0.09
25 15 0.28
26 14 0.26
27 14 0.26
28 6 0.11
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (26 bp):
GAGCCATATAATCGGGAAGCTCTGAA
Found at i:1619114 original size:21 final size:21
Alignment explanation
Indices: 1619088--1619138 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1619078 TATACGAATG
*
1619088 AATTTAACA-TCAATTTAATAC
1 AATTT-ACATTCAATTCAATAC
*
1619109 AATTTACATTCAATTCAATCC
1 AATTTACATTCAATTCAATAC
*
1619130 AATTCACAT
1 AATTTACAT
1619139 ATTAGGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTTACATTCAATTCAATAC
Found at i:1619667 original size:17 final size:17
Alignment explanation
Indices: 1619637--1619669 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1619627 AAAATATGAT
1619637 ATTTTCATTATTTTATC
1 ATTTTCATTATTTTATC
1619654 ATTTATCATT-TTTTAT
1 ATTT-TCATTATTTTAT
1619670 TTTTTTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTCATTATTTTATC
Found at i:1621156 original size:17 final size:18
Alignment explanation
Indices: 1621134--1621169 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1621124 ATCCTACATA
1621134 TAAAAA-TTTAAATAAAT
1 TAAAAATTTTAAATAAAT
*
1621151 TAAAAATTTTTAATAAAT
1 TAAAAATTTTAAATAAAT
1621169 T
1 T
1621170 TTTAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAAATTTTAAATAAAT
Found at i:1622612 original size:43 final size:43
Alignment explanation
Indices: 1622551--1622643 Score: 143
Period size: 43 Copynumber: 2.1 Consensus size: 43
1622541 AGAATCAACG
1622551 CATTAAGAGAGAGGAAGTGGATGAAGTGGAACCACCA-TTGACA
1 CATTAAGAGAGAGGAAGTGGATGAAG-GGAACCACCACTTGACA
* *
1622594 CATTAAGGGAGAGGAAGTGGATGAAGGGAACCGCCACTTTGACA
1 CATTAAGAGAGAGGAAGTGGATGAAGGGAACCACCAC-TTGACA
1622638 CATTAA
1 CATTAA
1622644 CTAGTACCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 9 0.20
43 25 0.54
44 12 0.26
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.17
Consensus pattern (43 bp):
CATTAAGAGAGAGGAAGTGGATGAAGGGAACCACCACTTGACA
Found at i:1623326 original size:18 final size:19
Alignment explanation
Indices: 1623303--1623338 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1623293 CTTTTAAAAA
1623303 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
1623321 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
1623339 AAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:1623327 original size:24 final size:26
Alignment explanation
Indices: 1623279--1623329 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
1623269 TTGATTTTAT
*
1623279 TAAATTTTCATAATCTTTTAAAAATA
1 TAAATTTTCAGAATCTTTTAAAAATA
*
1623305 TAAATTTT-AGAAT-TTTTATAAATA
1 TAAATTTTCAGAATCTTTTAAAAATA
1623329 T
1 T
1623330 TTTGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 4 0.17
26 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (26 bp):
TAAATTTTCAGAATCTTTTAAAAATA
Found at i:1623340 original size:41 final size:41
Alignment explanation
Indices: 1623295--1623375 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
1623285 TTCATAATCT
1623295 TTTAAAAATATAAAT-TTTAGAATTTTT-ATAAA-TATTTTGAA
1 TTTAAAAA-A-AAATATTTAGAATTTTTGA-AAATTATTTTGAA
*
1623336 TTTAAAAAAAAATATTTTGAATTTTTGAAAATTATTTTGA
1 TTTAAAAAAAAATATTTAGAATTTTTGAAAATTATTTTGA
1623376 TTTTTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
39 4 0.11
40 15 0.42
41 17 0.47
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (41 bp):
TTTAAAAAAAAATATTTAGAATTTTTGAAAATTATTTTGAA
Found at i:1623366 original size:21 final size:19
Alignment explanation
Indices: 1623308--1623392 Score: 73
Period size: 20 Copynumber: 4.3 Consensus size: 19
1623298 AAAAATATAA
*
1623308 ATTTTAGAATTTTTATAAAT
1 ATTTT-GAATTTTTAAAAAT
**
1623328 ATTTTGAATTTAAAAAAAAAT
1 ATTTTGAATTT--TTAAAAAT
*
1623349 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAAAT
* *
1623369 ATTTTGATTTTTTTAAAAT
1 ATTTTGAATTTTTAAAAAT
1623388 -TTTTG
1 ATTTTG
1623393 TTGGGAAAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.09
19 10 0.19
20 22 0.42
21 16 0.30
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAAT
Found at i:1623476 original size:9 final size:9
Alignment explanation
Indices: 1623462--1623488 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1623452 CCAATCTGTA
1623462 ATTCGAATT
1 ATTCGAATT
1623471 ATTCGAATT
1 ATTCGAATT
1623480 ATTCGAATT
1 ATTCGAATT
1623489 GTCAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (9 bp):
ATTCGAATT
Found at i:1627839 original size:31 final size:31
Alignment explanation
Indices: 1627803--1627861 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1627793 TAAAAGCCAG
1627803 TGACTT-AATTGAAAACTTTTGAATAATTCGA
1 TGACTTAAATT-AAAACTTTTGAATAATTCGA
1627834 TGACTTAAATTAAAACTTTTGAATAATT
1 TGACTTAAATTAAAACTTTTGAATAATT
1627862 TAGTGACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (31 bp):
TGACTTAAATTAAAACTTTTGAATAATTCGA
Found at i:1631307 original size:26 final size:27
Alignment explanation
Indices: 1631278--1631337 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
1631268 CATTATTATG
* *
1631278 ATTTTGTCCGTATTTTTTGTAG-TTTT
1 ATTTTATCCATATTTTTTGTAGTTTTT
*
1631304 ATTTTATCCATATTTTTTGTGGTTTTT
1 ATTTTATCCATATTTTTTGTAGTTTTT
1631331 ATTTTAT
1 ATTTTAT
1631338 TTACTCTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.67
Consensus pattern (27 bp):
ATTTTATCCATATTTTTTGTAGTTTTT
Found at i:1642956 original size:12 final size:12
Alignment explanation
Indices: 1642939--1642969 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
1642929 GACCAAATTA
1642939 GATTAATTAATC
1 GATTAATTAATC
1642951 GATTAATTAATC
1 GATTAATTAATC
1642963 GAATTAA
1 G-ATTAA
1642970 ATCGATTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (12 bp):
GATTAATTAATC
Found at i:1643535 original size:20 final size:22
Alignment explanation
Indices: 1643508--1643562 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
1643498 TTTATATATT
*
1643508 TTAAAAAAATTAT-TATA-AAA
1 TTAAAAAAATTATATAAAGAAA
*
1643528 TTATAAAAATATATATAAAGAAA
1 TTAAAAAAAT-TATATAAAGAAA
1643551 TTAAAAAAATTA
1 TTAAAAAAATTA
1643563 AAAAGTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 9 0.31
21 3 0.10
22 5 0.17
23 12 0.41
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAAAATTATATAAAGAAA
Found at i:1644860 original size:24 final size:24
Alignment explanation
Indices: 1644810--1644883 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
1644800 GATAATAATT
1644810 TAAATAAATAATATATATACATA-AAA
1 TAAATAAA-AA-ATAT-TACATACAAA
* * *
1644836 TATAATCATAAAT-TTACATTCAAA
1 TA-AATAAAAAATATTACATACAAA
1644860 TAAATAAAAAATATTACATACAAA
1 TAAATAAAAAATATTACATACAAA
1644884 AATTTTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
23 13 0.33
24 16 0.41
25 2 0.05
26 4 0.10
27 4 0.10
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAATAAAAAATATTACATACAAA
Found at i:1658489 original size:31 final size:31
Alignment explanation
Indices: 1658417--1658490 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
1658407 AAAATTTGAT
*
1658417 TTTTTCGAATTAATCGAATCAAGCTATTTAA
1 TTTTTCAAATTAATCGAATCAAGCTATTTAA
*
1658448 TTCTTTCAAATTAACTTGAAT-AAG-TAGTTTAA
1 TT-TTTCAAATTAA-TCGAATCAAGCTA-TTTAA
1658480 TTTTTCAAATT
1 TTTTTCAAATT
1658491 CGAGTTGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 13 0.34
32 20 0.53
33 5 0.13
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (31 bp):
TTTTTCAAATTAATCGAATCAAGCTATTTAA
Found at i:1659036 original size:13 final size:12
Alignment explanation
Indices: 1659019--1659048 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
1659009 TTTAATCAAA
1659019 TTTTTTGTTTTT
1 TTTTTTGTTTTT
1659031 TGTTTTTGTTTTT
1 T-TTTTTGTTTTT
1659044 TTTTT
1 TTTTT
1659049 AATTATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:1659422 original size:17 final size:19
Alignment explanation
Indices: 1659402--1659442 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
1659392 ATATATTTTA
*
1659402 AAAATATA-TAATA-CATC
1 AAAATATACTAAAAGCATC
1659419 AAAA-ATACTAAAAGCATC
1 AAAATATACTAAAAGCATC
1659437 AAAATA
1 AAAATA
1659443 AATGCTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 8 0.40
19 1 0.05
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAGCATC
Found at i:1659635 original size:22 final size:22
Alignment explanation
Indices: 1659610--1659652 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1659600 AAAATGGTAG
*
1659610 CAAAATAG-AAAGAAAACAACAA
1 CAAAACAGTAAAGAAAA-AACAA
1659632 CAAAACAGTAAAGAAAAAACA
1 CAAAACAGTAAAGAAAAAACA
1659653 GTTAACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.72, C:0.14, G:0.09, T:0.05
Consensus pattern (22 bp):
CAAAACAGTAAAGAAAAAACAA
Found at i:1660319 original size:27 final size:27
Alignment explanation
Indices: 1660258--1660312 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
1660248 TATTAAATCT
* *
1660258 AAACTTAAGTACTTAATTGAGACAAAAA
1 AAAC-TAAGTACTCAATTGAGAAAAAAA
1660286 AAACTAAGTA-TCAATT-AGAAAAAAA
1 AAACTAAGTACTCAATTGAGAAAAAAA
1660311 AA
1 AA
1660313 GTACTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.40
26 5 0.20
27 6 0.24
28 4 0.16
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.22
Consensus pattern (27 bp):
AAACTAAGTACTCAATTGAGAAAAAAA
Found at i:1666163 original size:30 final size:30
Alignment explanation
Indices: 1666129--1666218 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
1666119 CCCGAATAAT
**
1666129 AAATATTTTTTTTATATTTTTTTAATTTTA
1 AAATATTTTTTAAATATTTTTTTAATTTTA
* *
1666159 AAATACTTTTTAAAAATTTTTTTAATTTTA
1 AAATATTTTTTAAATATTTTTTTAATTTTA
1666189 AAAT-TTTTTTAAAATACTTTTTTTAATTTT
1 AAATATTTTTT-AAATA-TTTTTTTAATTTT
1666219 TATTTTAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
29 5 0.10
30 34 0.65
31 13 0.25
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (30 bp):
AAATATTTTTTAAATATTTTTTTAATTTTA
Found at i:1666180 original size:31 final size:30
Alignment explanation
Indices: 1666142--1666218 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 30
1666132 TATTTTTTTT
1666142 ATATTTTTTTAATTTTAAAATACTTTTTAAA
1 ATATTTTTTTAATTTTAAAAT-CTTTTTAAA
*
1666173 A-ATTTTTTTAATTTTAAAATTTTTTTAAA
1 ATATTTTTTTAATTTTAAAATCTTTTTAAA
1666202 ATACTTTTTTTAATTTT
1 ATA-TTTTTTTAATTTT
1666219 TATTTTAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 9 0.21
30 20 0.47
31 14 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
ATATTTTTTTAATTTTAAAATCTTTTTAAA
Found at i:1666193 original size:17 final size:18
Alignment explanation
Indices: 1666166--1666200 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
1666156 TTAAAATACT
1666166 TTTTAAAAATTTTTTTAA
1 TTTTAAAAATTTTTTTAA
1666184 TTTT-AAAATTTTTTTAA
1 TTTTAAAAATTTTTTTAA
1666201 AATACTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTAAAAATTTTTTTAA
Found at i:1667454 original size:19 final size:19
Alignment explanation
Indices: 1667412--1667454 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
1667402 CAATTCAATC
* * *
1667412 AAAAAACATTAAAATTTTA
1 AAAAAAAATTAAAAATTAA
*
1667431 TAAAAAAATTAAAAATTAA
1 AAAAAAAATTAAAAATTAA
1667450 AAAAA
1 AAAAA
1667455 TATGATTCAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAAAATTAAAAATTAA
Found at i:1669230 original size:20 final size:19
Alignment explanation
Indices: 1669181--1669232 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1669171 AAAAAGAGAA
1669181 TAATAAATATAAATAAAATT
1 TAATAAATA-AAATAAAATT
* *
1669201 TACTTGAATAAAATAAAATT
1 TA-ATAAATAAAATAAAATT
1669221 TAATAAAATAAA
1 TAAT-AAATAAA
1669233 TATCTTGGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 5 0.19
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
TAATAAATAAAATAAAATT
Found at i:1669791 original size:94 final size:94
Alignment explanation
Indices: 1669692--1669866 Score: 305
Period size: 94 Copynumber: 1.9 Consensus size: 94
1669682 ATATATATAT
*
1669692 ATATATATATTAAAATCAAACTACAGCCTGATCCAATCCAACCTAAACTTATTCATGGATTCAGC
1 ATATATATATTAAAATCAAACTACAACCTGATCCAATCCAACCTAAACTTATTCATGGATTCAGC
*
1669757 TACTTATCCAAACTTGGGCCTAGACGTAC
66 TACCTATCCAAACTTGGGCCTAGACGTAC
* * *
1669786 ATATATATTTTAAAATCAAGCTACAACCTGATCCAATCCAACCTAAACTTGTTCATGGATTCAGC
1 ATATATATATTAAAATCAAACTACAACCTGATCCAATCCAACCTAAACTTATTCATGGATTCAGC
1669851 TACCTATCCAAACTTG
66 TACCTATCCAAACTTG
1669867 AATATTTGCT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.30
Consensus pattern (94 bp):
ATATATATATTAAAATCAAACTACAACCTGATCCAATCCAACCTAAACTTATTCATGGATTCAGC
TACCTATCCAAACTTGGGCCTAGACGTAC
Found at i:1675710 original size:31 final size:31
Alignment explanation
Indices: 1675642--1675703 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
1675632 TGGTCATTTG
*
1675642 AACTATTCGAAAGTTTTCATTTAAGTCACTA
1 AACTATTCAAAAGTTTTCATTTAAGTCACTA
* *
1675673 AACTATTCAAAAGTTTTTATTTACGTCACTA
1 AACTATTCAAAAGTTTTCATTTAAGTCACTA
1675704 GGCTATTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.40
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAGTCACTA
Found at i:1676336 original size:19 final size:20
Alignment explanation
Indices: 1676307--1676344 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1676297 TTTTTGTCAA
1676307 AATTGGTCCCTAAATTTAAC
1 AATTGGTCCCTAAATTTAAC
1676327 AATT-GTCCCTAAATTTAA
1 AATTGGTCCCTAAATTTAA
1676345 AAATCGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (20 bp):
AATTGGTCCCTAAATTTAAC
Found at i:1682228 original size:150 final size:150
Alignment explanation
Indices: 1681957--1682259 Score: 606
Period size: 150 Copynumber: 2.0 Consensus size: 150
1681947 AAAGGTGTGG
1681957 GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
1 GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
1682022 TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTGTTGCATGCTGTATTTATTACAAA
66 TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTGTTGCATGCTGTATTTATTACAAA
1682087 CATTCAGATCTCTTGCTAGT
131 CATTCAGATCTCTTGCTAGT
1682107 GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
1 GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
1682172 TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTGTTGCATGCTGTATTTATTACAAA
66 TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTGTTGCATGCTGTATTTATTACAAA
1682237 CATTCAGATCTCTTGCTAGT
131 CATTCAGATCTCTTGCTAGT
1682257 GAT
1 GAT
1682260 TGCTCTTCTT
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 153 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (150 bp):
GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTGTTGCATGCTGTATTTATTACAAA
CATTCAGATCTCTTGCTAGT
Found at i:1691302 original size:24 final size:22
Alignment explanation
Indices: 1691271--1691320 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
1691261 ATTTTTCAGC
* *
1691271 TTTTCTTGACTTTGGGTTTTCAT
1 TTTTCTTGAATTT-CGTTTTCAT
*
1691294 TTTTACTTGAATTTCTTTTTCAT
1 TTTT-CTTGAATTTCGTTTTCAT
1691317 TTTT
1 TTTT
1691321 TTTAAGGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.12, C:0.12, G:0.10, T:0.66
Consensus pattern (22 bp):
TTTTCTTGAATTTCGTTTTCAT
Found at i:1698462 original size:23 final size:23
Alignment explanation
Indices: 1698432--1698475 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1698422 TACAAGTTAG
*
1698432 GGATGATAATTTAGATTGTGATT
1 GGATGATAATTCAGATTGTGATT
*
1698455 GGATGATAATTCGGATTGTGA
1 GGATGATAATTCAGATTGTGA
1698476 ATTTGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.39
Consensus pattern (23 bp):
GGATGATAATTCAGATTGTGATT
Found at i:1701260 original size:80 final size:79
Alignment explanation
Indices: 1701055--1701584 Score: 471
Period size: 80 Copynumber: 6.6 Consensus size: 79
1701045 AACATCATTG
* * * * * * * *
1701055 GTTTTTCCTCTTGAAAATTCTCAGAAAATTTTCACAGATTCACTCAAAGGAAATATAGAAAGAGC
1 GTTTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATT-ACTC-AAGGAAATACAGCAAGAAC
1701120 AAAAGGGTATCAGAATT
64 AAAAGGGTATCA-AATT
* *
1701137 GGTTTCCCTTCATGCAAATTCCAAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAACA
1 GTTTTCCC-TCATGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAAC-
* *
1701202 AAAAGGGCA-CAAACTA
64 AAAAGGGTATCAAA-TT
* * * * *
1701218 GTTTTCCCTCAAGCGATTTCCCAGAAAATTTTCACAAATTACTCAAGCAAATACAGCAAGAGCAA
1 GTTTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAACAA
*
1701283 AAGGGAATCAAAAATT
66 AAGGGTATC--AAATT
** * **
1701299 GTTTTCCCTCATGCAAATTCCCAGAAAAAATTCACAGAGAACT-AAGGAAATACAGCAA-AAGCA
1 GTTTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAA-CA
* *
1701362 AACGGATATCAAATT
65 AAAGGGTATCAAATT
* * * * *
1701377 -TGGTCCCCTCTTGCAAATTCCCAGAAAGTTTTCACAAATTACTAAAGGAAATACAGCAA-AAGC
1 GT-TTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAA-C
*
1701440 AAAAGGGTATCGAATT
64 AAAAGGGTATCAAATT
* * * * *
1701456 GATTTCTCC-CATTCAAATTCCCAGAAAAATTTTCACAAATTACTCAAGCAAATACAACAAGAGC
1 GTTTTC-CCTCATGCAAATTCCCAG-AAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAAC
* * ***
1701520 AGAAGGGTACCTAACCA
64 AAAAGGGTATC-AAATT
* * *
1701537 GTGTTCCCTCACT-CAAATTCCCAGAAAAAATTTCAGAAATTACTCAAG
1 GTTTTCCCTCA-TGCAAATTCCCAG-AAAATTTTCACAAATTACTCAAG
1701585 AAAAACTTAT
Statistics
Matches: 366, Mismatches: 66, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
77 1 0.00
78 37 0.10
79 56 0.15
80 120 0.33
81 103 0.28
82 22 0.06
83 27 0.07
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.24
Consensus pattern (79 bp):
GTTTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAACAA
AAGGGTATCAAATT
Found at i:1701415 original size:159 final size:160
Alignment explanation
Indices: 1701061--1701612 Score: 492
Period size: 159 Copynumber: 3.4 Consensus size: 160
1701051 ATTGGTTTTT
* * * * *
1701061 CCTCTTGAAAATTCTCAGAAAATTTTCACAGATTCACTCAAAGGAAATATAGAAAGAGCAAAAGG
1 CCTCTTGCAAATTCCCAGAAAATTTTCACAAATT-ACTC-AAGGAAATACAGCAAGAGCAAAAGG
* * ** **
1701126 GTATCAGAATTGGTTTCCCTTCATGCAAATTCCAAGAAAATTTTCACAAATTACTCAAGGAAATA
64 GTATCAGAATTGATTTCCC-TCATGCAAATTCCCAGAAAAAATTCACAAAGAACTCAAGGAAATA
* * *
1701191 CAGCAAGAACAAAAAGGGCACAAACTAGTTTTC
128 CAGCAAGAACAAAAAGGACACAAACTAGTGTCC
** * * * *
1701224 CCTCAAGCGATTTCCCAGAAAATTTTCACAAATTACTCAAGCAAATACAGCAAGAGCAAAAGGGA
1 CCTCTTGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAGCAAAAGGGT
* * *
1701289 ATCAAAAATTGTTTTCCCTCATGCAAATTCCCAGAAAAAATTCACAGAGAACT-AAGGAAATACA
66 ATC-AGAATTGATTTCCCTCATGCAAATTCCCAGAAAAAATTCACAAAGAACTCAAGGAAATACA
* * * *
1701353 GCAA-AAGC-AAACGGATATCAAATTTG-GTCC
130 GCAAGAA-CAAAAAGGACA-CAAACTAGTGTCC
* * *
1701383 CCTCTTGCAAATTCCCAGAAAGTTTTCACAAATTACTAAAGGAAATACAGCAAAAGCAAAAGGGT
1 CCTCTTGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAGCAAAAGGGT
* * ** *
1701448 ATC-GAATTGATTTCTCC-CATTCAAATTCCCAGAAAAATTTTCACAAATTACTCAAGCAAATAC
66 ATCAGAATTGATTTC-CCTCATGCAAATTCCCAGAAAAA-ATTCACAAAGAACTCAAGGAAATAC
* * * * * * *
1701511 AACAAGAGCAGAAGGGTAC-CTAACCAGTGTTC
129 AGCAAGAACAAAAAGG-ACACAAACTAGTGTCC
* * * * *
1701543 CCTCACT-CAAATTCCCAGAAAAAATTTCAGAAATTACTCAA-GAAAAACTTATCAAGAGCAAAA
1 CCTC-TTGCAAATTCCCAG-AAAATTTTCACAAATTACTCAAGGAAATAC--AGCAAGAGC-AAA
1701606 AGGGTAT
61 AGGGTAT
1701613 TGAAAATCAA
Statistics
Matches: 313, Mismatches: 61, Indels: 30
0.77 0.15 0.07
Matches are distributed among these distances:
157 28 0.09
158 12 0.04
159 87 0.28
160 51 0.16
161 75 0.24
162 23 0.07
163 37 0.12
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (160 bp):
CCTCTTGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAGCAAAAGGGT
ATCAGAATTGATTTCCCTCATGCAAATTCCCAGAAAAAATTCACAAAGAACTCAAGGAAATACAG
CAAGAACAAAAAGGACACAAACTAGTGTCC
Found at i:1709795 original size:146 final size:146
Alignment explanation
Indices: 1709507--1710254 Score: 717
Period size: 146 Copynumber: 5.0 Consensus size: 146
1709497 GAGTGAATTT
* * * * *
1709507 GAGATAGGAAGTAACAAAAAACAAGGCAATTAGAGTGAAGGGTATCGAAATAAAATTGAAAAAAA
1 GAGATAAGAAGTTA-AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTG--AAAAA
* * * *
1709572 AAAACACACAAAAACCCAGAGTCAAGAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAAT
63 AAAA-AC-C--TAACCCAGAGCCAAGAACACCATG-AAGATCAAATGCTCAAACGAACAACCAAT
*
1709637 AAAACAGA-GA-TTTCAGCAAAATTA
123 AAAACA-ATGATTTTCAGCAAAA-TC
*
1709661 GAGATATGAAGTT-AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAAA
1 GAGATAAGAAGTTAAAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAAA
* *
1709725 AACCTAACTCAGAGCCAAGAACACCATGACAGATCAAATGCTCAAACGAACAACCAATATAACAA
66 AACCTAACCCAGAGCCAAGAACACCATGA-AGATCAAATGCTCAAACGAACAACCAATAAAACAA
1709790 TGATTTTCAGCAAAATC
130 TGATTTTCAGCAAAATC
* * * * *
1709807 GAGCTAGGAAGTTTTAAAAAAAAAACCAAGGCAATTAGACTAAAGAGTATTGAGATAAATTTGAA
1 GAGATAAGAAG--TT---AAAAAAA-CAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTG--
* * * *
1709872 AAGAAAAGAAAAACCTAACGCAGAGCCAAAAACACCATGAAAGATCAAATGCTCAAGCGAATAAC
58 -A-AAAA-AAAAACCTAACCCAGAGCCAAGAACACCATG-AAGATCAAATGCTCAAACGAACAAC
* * *
1709937 CAATAAAAAAATTATTTTCAGCGAAATC
119 CAATAAAACAATGATTTTCAGCAAAATC
* * *
1709965 GA-ACTAAGAAGTAAAAAAAAAAAGGCAATTAGAGTAAAGGGTATTGGAATAAATTTGAAAAAAA
1 GAGA-TAAGAAGTTAAAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAA
* * * * *
1710029 AAA--AAACCCAGAGCCAAGAATCTCACC--CAAGCTCGAATGCTCAAACGAACAACCAATAAAT
65 AAACCTAACCCAGAGCCAAGAA---CACCATGAAGATCAAATGCTCAAACGAACAACCAATAAAA
*
1710090 CAATGATTTTCAGCAAATTC
127 CAATGATTTTCAGCAAAATC
* * * * * * * *
1710110 GAGCTAAGAAGTTAAAAAAAATAAGGCAATTATACTAAAGGGAATTGAAATAAAATCGAAAAAAC
1 GAGATAAGAAGTT-AAAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAA
* * * *
1710175 ACA-CTAACCCAAAGCCAAGAATCTCACCA--AAGCTCAAATGCTCAAACGAACAACCAAAAACA
65 AAACCTAACCCAGAGCCAAGAA---CACCATGAAGATCAAATGCTCAAACGAACAACCAATAA-A
1710237 ACAATGATTTTCAGCAAA
126 ACAATGATTTTCAGCAAA
1710255 TTCTAGCTGG
Statistics
Matches: 507, Mismatches: 62, Indels: 56
0.81 0.10 0.09
Matches are distributed among these distances:
145 70 0.14
146 109 0.21
147 67 0.13
148 29 0.06
149 3 0.01
150 9 0.02
152 78 0.15
153 41 0.08
154 11 0.02
156 2 0.00
157 4 0.01
158 83 0.16
159 1 0.00
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.17
Consensus pattern (146 bp):
GAGATAAGAAGTTAAAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAAA
AACCTAACCCAGAGCCAAGAACACCATGAAGATCAAATGCTCAAACGAACAACCAATAAAACAAT
GATTTTCAGCAAAATC
Found at i:1710114 original size:303 final size:298
Alignment explanation
Indices: 1709514--1710173 Score: 811
Period size: 305 Copynumber: 2.2 Consensus size: 298
1709504 TTTGAGATAG
* * *
1709514 GAAG-TAACAAAAAACAAGGCAATTAGAGTGAAGGGTATCGAAATAAAATTGAAAAAAAAAAACA
1 GAAGTTAA-AAAAAACAAGGCAATTAGACTAAAGGGTATTGAAATAAAATTGAAAAAAAAAAACA
* *
1709578 CACAAAAACCCAGAGTCAAGAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAACA
65 CACAAAAACCCAGAGCCAAAAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAACA
* * * *
1709643 GAGATTTCAGCAAAATTAGAGATATGAAGTTAAAAAACAAGGCAATTAGAGTAAAGGGTATTGAA
130 AAGATTTCAGCAAAATTAGAGATAAGAAGTAAAAAAAAAAGGCAATTAGAGTAAAGGGTATTGAA
* * *
1709708 ATAAATTTGAAAAAAAAAACCTAACTCAGAGCCAAGAACACCATGACAGATCAAATGCTCAAACG
195 ATAAATTTGAAAAAAAAAA-CAAACCCAGAGCCAAGAACACCA-CACAGATCAAATGCTCAAACG
*
1709773 AACAACCAATATAACAATGATTTTCAGCAAAATCGAGCTAG
258 AACAACCAATATAACAATGATTTTCAGCAAAATCGAGCTAA
* * *
1709814 GAAGTTTTAAAAAAAAAACCAAGGCAATTAGACTAAAGAGTATTGAGATAAATTTGAAAAGAAAA
1 GAAG--TT--AAAAAAAA-CAAGGCAATTAGACTAAAGGGTATTGAAATAAAATTGAAAA-AAAA
** *
1709879 GAAA-A-AC-CTAACGCAGAGCCAAAAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAAT
60 -AAACACACAAAAACCCAGAGCCAAAAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAAT
* * *
1709941 AAAA-AAATTATTTTCAGCGAAA-TCGA-ACTAAGAAGTAAAAAAAAAAAGGCAATTAGAGTAAA
124 AAAACAAA-GA-TTTCAGCAAAATTAGAGA-TAAGAAGT-AAAAAAAAAAGGCAATTAGAGTAAA
* * *
1710003 GGGTATTGGAATAAATTTGAAAAAAAAAA-AAACCCAGAGCCAAGAATCTCACC-CA-AGCTCGA
185 GGGTATTGAAATAAATTTGAAAAAAAAAACAAACCCAGAGCCAAGAA---CACCACACAGATCAA
*
1710065 ATGCTCAAACGAACAACCAATA-AATCAATGATTTTCAGCAAATTCGAGCTAA
247 ATGCTCAAACGAACAACCAATATAA-CAATGATTTTCAGCAAAATCGAGCTAA
* * * *
1710117 GAAGTTAAAAAAAATAAGGCAATTATACTAAAGGGAATTGAAATAAAATCGAAAAAA
1 GAAGTTAAAAAAAACAAGGCAATTAGACTAAAGGGTATTGAAATAAAATTGAAAAAA
1710174 CACACTAACC
Statistics
Matches: 311, Mismatches: 33, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
297 2 0.01
298 34 0.11
299 8 0.03
300 4 0.01
301 2 0.01
302 2 0.01
303 75 0.24
304 72 0.23
305 100 0.32
306 9 0.03
307 3 0.01
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.18
Consensus pattern (298 bp):
GAAGTTAAAAAAAACAAGGCAATTAGACTAAAGGGTATTGAAATAAAATTGAAAAAAAAAAACAC
ACAAAAACCCAGAGCCAAAAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAACAA
AGATTTCAGCAAAATTAGAGATAAGAAGTAAAAAAAAAAGGCAATTAGAGTAAAGGGTATTGAAA
TAAATTTGAAAAAAAAAACAAACCCAGAGCCAAGAACACCACACAGATCAAATGCTCAAACGAAC
AACCAATATAACAATGATTTTCAGCAAAATCGAGCTAA
Found at i:1711211 original size:31 final size:31
Alignment explanation
Indices: 1711176--1711236 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
1711166 GTAATTATAC
* * *
1711176 ACATGATATTTTAATTTTGGTTCAAATGTAT
1 ACATGAAACTTTAATTTTGATTCAAATGTAT
* *
1711207 ACATGAAACTTTGATTTTGATTCAATTGTA
1 ACATGAAACTTTAATTTTGATTCAAATGTA
1711237 CATATTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (31 bp):
ACATGAAACTTTAATTTTGATTCAAATGTAT
Found at i:1713841 original size:13 final size:13
Alignment explanation
Indices: 1713823--1713854 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1713813 TTTCCAGCAA
1713823 TTATGAATTTATT
1 TTATGAATTTATT
1713836 TTATGAATTTATT
1 TTATGAATTTATT
*
1713849 TGATGA
1 TTATGA
1713855 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:1714062 original size:50 final size:50
Alignment explanation
Indices: 1713949--1714190 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
1713939 ATTTGGGTAA
* * *
1713949 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
1714005 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
1714055 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
1714105 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
1714155 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
1714191 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:1714138 original size:100 final size:103
Alignment explanation
Indices: 1713949--1714198 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
1713939 ATTTGGGTAA
1713949 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
1714014 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
1714055 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
1714117 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
1714155 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
1714199 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:1716649 original size:13 final size:13
Alignment explanation
Indices: 1716631--1716658 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1716621 TGATCTCTTC
1716631 TGGGTATTCTATA
1 TGGGTATTCTATA
1716644 TGGGTATTCTATA
1 TGGGTATTCTATA
1716657 TG
1 TG
1716659 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:1716963 original size:16 final size:16
Alignment explanation
Indices: 1716942--1716974 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1716932 GTACGTACAA
1716942 GTGATATTCTTCTTTT
1 GTGATATTCTTCTTTT
1716958 GTGATATTCTTCTTTT
1 GTGATATTCTTCTTTT
1716974 G
1 G
1716975 GATTTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.61
Consensus pattern (16 bp):
GTGATATTCTTCTTTT
Found at i:1718646 original size:5 final size:5
Alignment explanation
Indices: 1718636--1718697 Score: 83
Period size: 5 Copynumber: 12.2 Consensus size: 5
1718626 AATTATGTTT
1718636 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA TTATTA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA
1718686 TTATA TATATA T
1 TTATA T-TATA T
1718698 GACAAAGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 33 0.63
6 15 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:1718652 original size:3 final size:3
Alignment explanation
Indices: 1718639--1718689 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
1718629 TATGTTTTTA
*
1718639 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1718681 TAT TAT TAT
1 TAT TAT TAT
1718690 ATATATATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
2 12 0.29
3 29 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1718763 original size:40 final size:40
Alignment explanation
Indices: 1718706--1718801 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
1718696 ATGACAAAGA
1718706 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
1718747 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
1718787 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
1718802 GAAAGAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:1718817 original size:17 final size:18
Alignment explanation
Indices: 1718748--1718823 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 18
1718738 CAGAGAAGGG
*
1718748 AGAAAGAAAGAAACAGAG
1 AGAAAGAAAGAAACAGAA
* *
1718766 AGCAA-AACGAAACAGAGA
1 AGAAAGAAAGAAACAGA-A
* * *
1718784 AGGAAGGAAGGAA-AGAA
1 AGAAAGAAAGAAACAGAA
1718801 AGAAAGAAAGAAA-AGAAA
1 AGAAAGAAAGAAACAG-AA
1718819 AGAAA
1 AGAAA
1718824 AAGGGAAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
17 23 0.51
18 18 0.40
19 4 0.09
ACGTcount: A:0.67, C:0.05, G:0.28, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGAAACAGAA
Found at i:1719571 original size:29 final size:30
Alignment explanation
Indices: 1719512--1719569 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1719502 TCCGAGCCTT
*
1719512 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
1719542 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
1719570 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:1719799 original size:13 final size:13
Alignment explanation
Indices: 1719781--1719812 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1719771 TTTCCAGCAA
1719781 TTATGAATTTATT
1 TTATGAATTTATT
1719794 TTATGAATTTATT
1 TTATGAATTTATT
*
1719807 TGATGA
1 TTATGA
1719813 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:1720020 original size:50 final size:50
Alignment explanation
Indices: 1719907--1720148 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
1719897 ATTTGGGTAA
* * *
1719907 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
1719963 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
1720013 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
1720063 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
1720113 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
1720149 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:1720096 original size:100 final size:103
Alignment explanation
Indices: 1719907--1720156 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
1719897 ATTTGGGTAA
1719907 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
1719972 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
1720013 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
1720075 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
1720113 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
1720157 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:1725397 original size:60 final size:60
Alignment explanation
Indices: 1725329--1725444 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 60
1725319 AAATTGAATA
*
1725329 GTTAGGTGACCAAAAAATAAATGTACTAATAGTTGAGTGACCATTTTGTAACTTTTTATT
1 GTTAGGTGACCAAAAAAGAAATGTACTAATAGTTGAGTGACCATTTTGTAACTTTTTATT
* * *
1725389 GTTAGGTGACCAAAGAAGAAATTTACTAATAGTTGAGTGACTATTTTGTAACTTTT
1 GTTAGGTGACCAAAAAAGAAATGTACTAATAGTTGAGTGACCATTTTGTAACTTTT
1725445 CATAGTCGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (60 bp):
GTTAGGTGACCAAAAAAGAAATGTACTAATAGTTGAGTGACCATTTTGTAACTTTTTATT
Found at i:1729210 original size:30 final size:28
Alignment explanation
Indices: 1729161--1729219 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
1729151 AAAGTGATTT
*
1729161 AAATGAAATAATTAGGGCTAAAATGATA
1 AAATGAAAAAATTAGGGCTAAAATGATA
*
1729189 AAATGAAAAATATTAGAGGCTAAAATTATA
1 AAATGAAAAA-ATTAG-GGCTAAAATGATA
1729219 A
1 A
1729220 TTAAGCATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 9 0.33
29 5 0.19
30 13 0.48
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.25
Consensus pattern (28 bp):
AAATGAAAAAATTAGGGCTAAAATGATA
Found at i:1733833 original size:7 final size:7
Alignment explanation
Indices: 1733821--1733846 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1733811 AAGAGTACTC
1733821 AAATCCA
1 AAATCCA
1733828 AAATCCA
1 AAATCCA
1733835 AAATCCA
1 AAATCCA
1733842 AAATC
1 AAATC
1733847 TTGAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATCCA
Found at i:1734103 original size:29 final size:29
Alignment explanation
Indices: 1734057--1734115 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1734047 ATGTGTTTCA
1734057 ATACACTCGAACCAACATTTTCCTGCACT
1 ATACACTCGAACCAACATTTTCCTGCACT
*
1734086 ATACACTCGAACCCACATTTTCCTGCACT
1 ATACACTCGAACCAACATTTTCCTGCACT
1734115 A
1 A
1734116 GCAACAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.36, G:0.07, T:0.27
Consensus pattern (29 bp):
ATACACTCGAACCAACATTTTCCTGCACT
Found at i:1738256 original size:242 final size:235
Alignment explanation
Indices: 1737744--1738272 Score: 699
Period size: 241 Copynumber: 2.2 Consensus size: 235
1737734 AGACTACCCC
*** * *
1737744 TTCAAGATTTTGTTGTCCATGGATAACCATGTATTTAGCCTTTATTTATTCCACCTATATAATAG
1 TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCTTTATTTATTCCACCTATATAATAA
* *
1737809 AATTGGTCAAATTTCACGGAAAGTCCCTCTATTATTTTTTTTCACAAATTTAGCCTCTCTACTAT
66 AATTGGTCAAATTTCACAGAAAGTCCCTCTATTATTTTTTTTCACAAATTTAACCTCTCTACTAT
* * * * *
1737874 AATTTAATCAATTTTTGGGTGATTGGAGAGTGCCGAGTTAATTTAAAGTTCAAGAGAGTGGGATT
131 AATTTAATCAATTTTTGGGTGAGTAGAGAGTACCGAGTGAAGTTAAAGTTCAAGAGAGTGGGATT
* * *
1737939 ATATCAACAAAGTTTGAATAATGGTGATTGAAAGTGCCTT
196 ATATCAACAAAGTTTGAATAATGATCATCGAAAGTGCCTT
*
1737979 TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCATTATTTA-TCC-CCGTATATAATA
1 TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCTTTATTTATTCCACC-TATATAATA
* * *
1738042 AAATTGGTCAAATTTCATAG-AAGCTCCCTCTATTATTTATTTTTTTTCTCGCAAATTTAATCTC
65 AAATTGGTCAAATTTCACAGAAAG-TCCCTC---TA-TTA-TTTTTTT-TCACAAATTTAACCTC
* *
1738106 TCTACTATAATTTGATC-ATTTCTTGGGTGAGTAGAGAGTACCTGAGTGAAGTTAGAA-TTCAGG
123 TCTACTATAATTTAATCAATTT-TTGGGTGAGTAGAGAGTACC-GAGTGAAGTTA-AAGTTCAAG
*
1738169 AGAGTGGGATTATATCAACAAAGTTTGAATAATGATCATCGAGAGTGTCCTT
185 AGAGTGGGATTATATCAACAAAGTTTGAATAATGATCATCGAAAGTG-CCTT
* *
1738221 TTCAAGATTTTCTTGTCCAAATATAACCATGAATTTAGCCTTTATTTGTTCC
1 TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCTTTATTTATTCC
1738273 CTCTAAAATT
Statistics
Matches: 256, Mismatches: 25, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
233 5 0.02
234 35 0.14
235 43 0.17
237 2 0.01
238 3 0.01
239 11 0.04
240 46 0.18
241 57 0.22
242 51 0.20
243 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (235 bp):
TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCTTTATTTATTCCACCTATATAATAA
AATTGGTCAAATTTCACAGAAAGTCCCTCTATTATTTTTTTTCACAAATTTAACCTCTCTACTAT
AATTTAATCAATTTTTGGGTGAGTAGAGAGTACCGAGTGAAGTTAAAGTTCAAGAGAGTGGGATT
ATATCAACAAAGTTTGAATAATGATCATCGAAAGTGCCTT
Found at i:1749586 original size:43 final size:40
Alignment explanation
Indices: 1749522--1749600 Score: 115
Period size: 39 Copynumber: 1.9 Consensus size: 40
1749512 CTGAATATAA
1749522 TAAATATATATTTTTTATTTTTATTTTTATTTTTAAAATACTTT
1 TAAATATATATTTTTTA---TT-TTTTTATTTTTAAAATACTTT
1749566 TAAA-ATATATTTTTTATTTTTTTATTTTTAAAATA
1 TAAATATATATTTTTTATTTTTTTATTTTTAAAATA
1749601 AGTTTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
39 17 0.49
40 2 0.06
43 12 0.34
44 4 0.11
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (40 bp):
TAAATATATATTTTTTATTTTTTTATTTTTAAAATACTTT
Found at i:1749615 original size:26 final size:28
Alignment explanation
Indices: 1749563--1749617 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
1749553 TTTAAAATAC
* * *
1749563 TTTTAAAATATATTTTTTATTTTTTTAT
1 TTTTAAAATATAGTTTTTATATGTTTAT
1749591 TTTTAAAATA-AGTTTTTA-ATGTTTAT
1 TTTTAAAATATAGTTTTTATATGTTTAT
1749617 T
1 T
1749618 AAAAAATGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.29
27 7 0.29
28 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTAAAATATAGTTTTTATATGTTTAT
Found at i:1751212 original size:2 final size:2
Alignment explanation
Indices: 1751205--1751233 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1751195 GGAATTAAGC
1751205 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 A
1751234 AGAATCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1760824 original size:22 final size:24
Alignment explanation
Indices: 1760783--1760827 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
1760773 TTTGAATCAG
1760783 TTTTCTCTAATTTTTAATAATTAT
1 TTTTCTCTAATTTTTAATAATTAT
*
1760807 TTTTCT-TTATTTTT-ATAATTA
1 TTTTCTCTAATTTTTAATAATTA
1760828 AATTGGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 7 0.35
24 6 0.30
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTCTCTAATTTTTAATAATTAT
Found at i:1766219 original size:18 final size:18
Alignment explanation
Indices: 1766198--1766255 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
1766188 TTTTTTTATA
1766198 TTTTATGTTTTTAATAAT
1 TTTTATGTTTTTAATAAT
*
1766216 TTTTAAT-TTTTAAATATAT
1 TTTT-ATGTTTTTAATA-AT
1766235 TTTT-TGAATTTTTAA-AAT
1 TTTTATG--TTTTTAATAAT
1766253 TTT
1 TTT
1766256 AAAAAAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 1 0.03
18 17 0.52
19 9 0.27
20 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATGTTTTTAATAAT
Found at i:1768351 original size:10 final size:10
Alignment explanation
Indices: 1768338--1768395 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
1768328 TTTTTTTTGA
1768338 ATTTTTAGTG
1 ATTTTTAGTG
*
1768348 ATTTTTTTGTG
1 A-TTTTTAGTG
1768359 AATTTTTAGTG
1 -ATTTTTAGTG
* *
1768370 CTTTTAAGTG
1 ATTTTTAGTG
**
1768380 ATAGTTAGTG
1 ATTTTTAGTG
1768390 ATTTTT
1 ATTTTT
1768396 TTTTTTGAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
10 19 0.53
11 16 0.44
12 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.59
Consensus pattern (10 bp):
ATTTTTAGTG
Found at i:1768354 original size:22 final size:22
Alignment explanation
Indices: 1768327--1768374 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
1768317 TTTCGATTAT
*
1768327 TTTTTTTTTGAATTTTTAGTGA
1 TTTTTTTGTGAATTTTTAGTGA
*
1768349 TTTTTTTGTGAATTTTTAGTGC
1 TTTTTTTGTGAATTTTTAGTGA
1768371 TTTT
1 TTTT
1768375 AAGTGATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.69
Consensus pattern (22 bp):
TTTTTTTGTGAATTTTTAGTGA
Found at i:1772244 original size:66 final size:66
Alignment explanation
Indices: 1772169--1772301 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
1772159 GTACAATTCA
1772169 TTTGGTATTTTAGATATGGTTCATAATAAATTTGGATATGTCTTATTTTATTTTTGAGATTTCAG
1 TTTGGTATTTTAGATATGGTTCATAATAAATTTGGATATGTCTTATTTTATTTTTGAGATTTCAG
1772234 C
66 C
1772235 TTTGGTATTTTAGATATGGTTCATAATAAATTTGGATATGTCTTATTTTATTTTTGAGATTTCAG
1 TTTGGTATTTTAGATATGGTTCATAATAAATTTGGATATGTCTTATTTTATTTTTGAGATTTCAG
1772300 C
66 C
1772301 T
1 T
1772302 AAAATAAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.52
Consensus pattern (66 bp):
TTTGGTATTTTAGATATGGTTCATAATAAATTTGGATATGTCTTATTTTATTTTTGAGATTTCAG
C
Found at i:1773593 original size:5 final size:5
Alignment explanation
Indices: 1773580--1773641 Score: 60
Period size: 5 Copynumber: 13.0 Consensus size: 5
1773570 TTTCAAATAC
* * *
1773580 AAAAA AAAAG AAAAG AAAAG -AAAG AAACA- AATAC AAAA- AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG AAAAG AAAAG AAAAG AAAAG
1773628 AAAAG -AAAG AAAAG
1 AAAAG AAAAG AAAAG
1773642 GATAATTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
4 13 0.27
5 35 0.71
6 1 0.02
ACGTcount: A:0.81, C:0.03, G:0.15, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:1773603 original size:9 final size:9
Alignment explanation
Indices: 1773581--1773641 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
1773571 TTCAAATACA
*
1773581 AAAAAAAAG
1 AAAAGAAAG
1773590 AAAAGAAA-
1 AAAAGAAAG
*
1773598 AGAAAGAAAC
1 A-AAAGAAAG
* *
1773608 AAATACAAAA
1 AAA-AGAAAG
1773618 AAAAGAAAAG
1 AAAAG-AAAG
1773628 AAAAGAAAG
1 AAAAGAAAG
1773637 AAAAG
1 AAAAG
1773642 GATAATTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 1 0.02
9 26 0.60
10 16 0.37
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.02
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:1773623 original size:33 final size:34
Alignment explanation
Indices: 1773573--1773639 Score: 127
Period size: 33 Copynumber: 2.0 Consensus size: 34
1773563 ATAATTCTTT
1773573 CAAATACAAAAAAAAAGAAAAGAAAAGAAAGAAA
1 CAAATACAAAAAAAAAGAAAAGAAAAGAAAGAAA
1773607 CAAATAC-AAAAAAAAGAAAAGAAAAGAAAGAAA
1 CAAATACAAAAAAAAAGAAAAGAAAAGAAAGAAA
1773640 AGGATAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.79
34 7 0.21
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (34 bp):
CAAATACAAAAAAAAAGAAAAGAAAAGAAAGAAA
Found at i:1774834 original size:59 final size:59
Alignment explanation
Indices: 1774767--1774884 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
1774757 AGTTCAAGTC
1774767 AATTCGAGTTTGAAGTTTAGGGTTTTTCTTTTTTGTGAGTCATTACGGGGTTCGAATTA
1 AATTCGAGTTTGAAGTTTAGGGTTTTTCTTTTTTGTGAGTCATTACGGGGTTCGAATTA
1774826 AATTCGAGTTTGAAGTTTAGGGTTTTTCTTTTTTGTGAGTCATTACGGGGTTCGAATTA
1 AATTCGAGTTTGAAGTTTAGGGTTTTTCTTTTTTGTGAGTCATTACGGGGTTCGAATTA
1774885 TTTCATGATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.20, C:0.08, G:0.25, T:0.46
Consensus pattern (59 bp):
AATTCGAGTTTGAAGTTTAGGGTTTTTCTTTTTTGTGAGTCATTACGGGGTTCGAATTA
Found at i:1778734 original size:17 final size:18
Alignment explanation
Indices: 1778712--1778766 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
1778702 CTAAAATAGT
1778712 AACAAA-ATTAACAATAA
1 AACAAATATTAACAATAA
*
1778729 AACAAATGTTATACAAT-A
1 AACAAATATTA-ACAATAA
**
1778747 TCCAAATATTAACAATAA
1 AACAAATATTAACAATAA
1778765 AA
1 AA
1778767 TAGTAATAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 11 0.38
18 13 0.45
19 5 0.17
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.24
Consensus pattern (18 bp):
AACAAATATTAACAATAA
Found at i:1778838 original size:21 final size:22
Alignment explanation
Indices: 1778796--1778838 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1778786 GAATGGTAGC
*
1778796 AAAACAGTGGCAAAAAAGCAAG
1 AAAACAGTGGCAAAAAAACAAG
1778818 AAAACA-TGG-AAAAACAACAAG
1 AAAACAGTGGCAAAAA-AACAAG
1778839 GGTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.63, C:0.14, G:0.19, T:0.05
Consensus pattern (22 bp):
AAAACAGTGGCAAAAAAACAAG
Found at i:1782658 original size:50 final size:50
Alignment explanation
Indices: 1782534--1782782 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
1782524 GATAATAACA
* * ** * *
1782534 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* * *
1782585 TGCCCATGCCATGTCCCAAACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1782635 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1782685 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1782740 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1782783 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.54
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1782713 original size:100 final size:104
Alignment explanation
Indices: 1782533--1782782 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
1782523 TGATAATAAC
**
1782533 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1782598 TCCCAAACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAAACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1782635 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
*
1782698 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAAACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1782740 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1782783 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAAACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1782898 original size:13 final size:13
Alignment explanation
Indices: 1782877--1782908 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1782867 GCTTGGATCA
*
1782877 TCATCAAATAAAT
1 TCATAAAATAAAT
1782890 TCATAAAATAAAT
1 TCATAAAATAAAT
1782903 TCATAA
1 TCATAA
1782909 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1783156 original size:30 final size:30
Alignment explanation
Indices: 1783120--1783177 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1783110 CCTCGACTCT
*
1783120 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1783150 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1783178 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1783893 original size:17 final size:18
Alignment explanation
Indices: 1783866--1783941 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 18
1783856 AATTTCCCTT
1783866 TTTCTTTTCT-TTTCTTTC
1 TTTC-TTTCTGTTTCTTTC
* *
1783884 TTTCTTTCT-TTCCTTCC
1 TTTCTTTCTGTTTCTTTC
* *
1783901 TTCCTTCTCTGTTTCGTT-
1 TTTCTT-TCTGTTTCTTTC
* *
1783919 TTGCTCTCTGTTTCTTTC
1 TTTCTTTCTGTTTCTTTC
1783937 TTTCT
1 TTTCT
1783942 CCCTTCTCTG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
17 26 0.58
18 15 0.33
19 4 0.09
ACGTcount: A:0.00, C:0.28, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTCTTTCTGTTTCTTTC
Found at i:1783950 original size:40 final size:40
Alignment explanation
Indices: 1783888--1783982 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
1783878 TCTTTCTTTC
* *
1783888 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
1783929 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
1783969 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
1783983 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:1784008 original size:3 final size:3
Alignment explanation
Indices: 1784000--1784050 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
1783990 TCATATATAT
1784000 ATA ATA ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1784043 AT- ATA ATA
1 ATA ATA ATA
1784051 TAAAAACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
2 12 0.29
3 30 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:1784019 original size:5 final size:5
Alignment explanation
Indices: 1784003--1784053 Score: 84
Period size: 5 Copynumber: 9.8 Consensus size: 5
1783993 TATATATATA
1784003 ATAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AATAAT ATAAT ATAA
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAA
1784054 AAACATAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 34 0.77
6 10 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:1784031 original size:31 final size:30
Alignment explanation
Indices: 1783992--1784053 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 30
1783982 TTTCTTTGTC
1783992 ATATATAT-ATAATAATAATAATATAATATA
1 ATATATATAAT-ATAATAATAATATAATATA
1784022 ATATAATATAATATAATAATAATATAATATA
1 ATAT-ATATAATATAATAATAATATAATATA
1784053 A
1 A
1784054 AAACATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 4 0.13
31 24 0.80
32 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
ATATATATAATATAATAATAATATAATATA
Found at i:1784061 original size:21 final size:21
Alignment explanation
Indices: 1784003--1784062 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1783993 TATATATATA
*
1784003 ATAATAATAATATAAT-ATAAT
1 ATAAT-ATAATAAAATAATAAT
*
1784024 ATAATATAATATAATAATAAT
1 ATAATATAATAAAATAATAAT
1784045 ATAATATAA-AAACATAAT
1 ATAATATAATAAA-ATAAT
1784063 TATTACTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 12 0.33
21 24 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATATAATAAAATAATAAT
Found at i:1785736 original size:26 final size:26
Alignment explanation
Indices: 1785706--1785758 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1785696 ATCCCAGAGA
1785706 AAATCCAAAAGAAGAATATCACTTGT
1 AAATCCAAAAGAAGAATATCACTTGT
1785732 AAATCCAAAAGAAGAATATCACTTGT
1 AAATCCAAAAGAAGAATATCACTTGT
1785758 A
1 A
1785759 CGTACTAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (26 bp):
AAATCCAAAAGAAGAATATCACTTGT
Found at i:1786055 original size:13 final size:13
Alignment explanation
Indices: 1786037--1786064 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1786027 GATAAAAGAG
1786037 CATATAGAATACC
1 CATATAGAATACC
1786050 CATATAGAATACC
1 CATATAGAATACC
1786063 CA
1 CA
1786065 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:1788620 original size:50 final size:50
Alignment explanation
Indices: 1788496--1788744 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
1788486 GATAATAACA
* * ** * *
1788496 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
1788547 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
1788597 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
1788647 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
1788702 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
1788745 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:1788674 original size:100 final size:104
Alignment explanation
Indices: 1788495--1788744 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
1788485 TGATAATAAC
**
1788495 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
1788560 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
1788597 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
1788660 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
1788702 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1788745 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:1788860 original size:13 final size:13
Alignment explanation
Indices: 1788839--1788870 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1788829 GCTTGGATCA
*
1788839 TCATCAAATAAAT
1 TCATAAAATAAAT
1788852 TCATAAAATAAAT
1 TCATAAAATAAAT
1788865 TCATAA
1 TCATAA
1788871 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1789118 original size:30 final size:30
Alignment explanation
Indices: 1789082--1789139 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1789072 CCTCGACTCT
*
1789082 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1789112 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1789140 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1789915 original size:41 final size:41
Alignment explanation
Indices: 1789823--1789948 Score: 141
Period size: 41 Copynumber: 3.0 Consensus size: 41
1789813 ACCCCAAATT
* * *
1789823 TCCCTTTTTCT-TTTC-TTTT-CTTTCTTTTTCTTTCTTTCC
1 TCCCTTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTCTTT-C
*
1789862 TTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTCTTTC
1 -TCC--CTTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTCTTTC
*
1789906 TCCCTTTCTCTGTTTTGTTTTGCTCTCTGTTTCTTTTCTTTC
1 TCCCTTTCTCTGTTTCGTTTTGCTCTCTGTTTC-TTTCTTTC
1789948 T
1 T
1789949 TTCTTTGTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
40 3 0.04
41 28 0.38
42 15 0.20
43 7 0.09
44 5 0.07
45 16 0.22
ACGTcount: A:0.00, C:0.28, G:0.06, T:0.66
Consensus pattern (41 bp):
TCCCTTTCTCTGTTTCGTTTTGCTCTCTGTTTCTTTCTTTC
Found at i:1789974 original size:3 final size:3
Alignment explanation
Indices: 1789966--1790016 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
1789956 TCATATATAT
*
1789966 ATA ATA ATA ATA TATA ATA AT- ATA AT- ATA AT- ATA TTA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1790009 AT- ATA ATA
1 ATA ATA ATA
1790017 TAAAAACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 8 0.20
3 30 0.73
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:1789980 original size:13 final size:12
Alignment explanation
Indices: 1789960--1790016 Score: 77
Period size: 11 Copynumber: 5.0 Consensus size: 12
1789950 TCTTTGTCAT
1789960 ATATATATAATA
1 ATATATATAATA
1789972 ATAATATATAATA
1 AT-ATATATAATA
1789985 ATATA-AT-ATA
1 ATATATATAATA
1789995 ATATAT-TAATA
1 ATATATATAATA
1790006 ATA-ATATAATA
1 ATATATATAATA
1790017 TAAAAACATA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
10 11 0.27
11 13 0.32
12 5 0.12
13 12 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATAATA
Found at i:1789992 original size:5 final size:5
Alignment explanation
Indices: 1789958--1790019 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
1789948 TTTCTTTGTC
1789958 ATATA TATATA ATAATA ATAT- ATAATA ATATA ATATA ATAT- AT-TA
1 ATATA -ATATA AT-ATA ATATA AT-ATA ATATA ATATA ATATA ATATA
1790003 ATAATA ATATA ATATA A
1 AT-ATA ATATA ATATA A
1790020 AAACATAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
3 1 0.02
4 6 0.12
5 27 0.54
6 16 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:1790008 original size:37 final size:37
Alignment explanation
Indices: 1789958--1790028 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
1789948 TTTCTTTGTC
* *
1789958 ATATATATATAATAATA-ATATATAATAATATAATATA
1 ATATATATATAATAATATA-ATATAAAAACATAATATA
1789995 ATATAT-TAATAATAATATAATATAAAAACATAAT
1 ATATATAT-ATAATAATATAATATAAAAACATAAT
1790029 TATTACTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 1 0.03
37 28 0.93
38 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (37 bp):
ATATATATATAATAATATAATATAAAAACATAATATA
Found at i:1790019 original size:13 final size:13
Alignment explanation
Indices: 1789958--1790019 Score: 76
Period size: 13 Copynumber: 4.8 Consensus size: 13
1789948 TTTCTTTGTC
1789958 ATATATATATAATA
1 ATATA-ATATAATA
1789972 ATA-ATATATAATA
1 ATATA-ATATAATA
1789985 ATATAATATAAT-
1 ATATAATATAATA
*
1789997 ATATTA-ATAATA
1 ATATAATATAATA
1790009 ATATAATATAA
1 ATATAATATAA
1790020 AAACATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
11 5 0.12
12 10 0.23
13 24 0.56
14 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:1795546 original size:35 final size:36
Alignment explanation
Indices: 1795507--1795574 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
1795497 ATATATTTTT
*
1795507 TATTTTTA-TTTTTTAATTTTAAAATACTTTTTAAA
1 TATTTTTATTTTTTTAATTTTAAAATAATTTTTAAA
*
1795542 TATTTTTATTTTTTTATTTTTAAAATAATTTTT
1 TATTTTTATTTTTTTAATTTTAAAATAATTTTT
1795575 TAATGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (36 bp):
TATTTTTATTTTTTTAATTTTAAAATAATTTTTAAA
Found at i:1816979 original size:2 final size:2
Alignment explanation
Indices: 1816972--1817000 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1816962 GAAGGTATTA
1816972 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 A
1817001 CGCGTGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1819342 original size:31 final size:31
Alignment explanation
Indices: 1819307--1819379 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
1819297 TTAATATATT
**
1819307 ATTTGGTATTTGAATTTGGCTTAAACATTCA
1 ATTTGGTATTTGAATTTCACTTAAACATTCA
* * * *
1819338 ATTTGGTACTTGAGTTTCACTTTAATATTCA
1 ATTTGGTATTTGAATTTCACTTAAACATTCA
*
1819369 ATTTAGTATTT
1 ATTTGGTATTT
1819380 AACCCAAACA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTTGGTATTTGAATTTCACTTAAACATTCA
Found at i:1822278 original size:6 final size:6
Alignment explanation
Indices: 1822267--1822304 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
1822257 CATTGTGTAT
1822267 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA AT
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA AT
1822305 GAGAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:1827336 original size:7 final size:7
Alignment explanation
Indices: 1827294--1827321 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1827284 TTAAAATATA
1827294 TATTTTT
1 TATTTTT
1827301 TATTTTT
1 TATTTTT
1827308 TATTTTT
1 TATTTTT
1827315 TATTTTT
1 TATTTTT
1827322 AAAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TATTTTT
Found at i:1830476 original size:32 final size:32
Alignment explanation
Indices: 1830435--1830503 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
1830425 ACCCTCCAAA
* *
1830435 TTTTTGAAAATTTTCATTATGC-CTTTTAATTT
1 TTTTTGAAAACTTTAATTATGCTC-TTTAATTT
1830467 TTTTTGAAAACTTTAATTATGCTCTTTAATTT
1 TTTTTGAAAACTTTAATTATGCTCTTTAATTT
1830499 TTTTT
1 TTTTT
1830504 TTTGAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.61
Consensus pattern (32 bp):
TTTTTGAAAACTTTAATTATGCTCTTTAATTT
Done.