Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_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: 2950132
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 14
Found at i:1428568 original size:32 final size:32
Alignment explanation
Indices: 1428527--1428587 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
1428517 TAAAAAAATG
1428527 ACACAAACAAAAGAAACA-AAATAAGTTAGTGT
1 ACACAAACAAAAGAAA-AGAAATAAGTTAGTGT
*
1428559 ACACAAACAAAAGAAAAGAAATTAGTTAG
1 ACACAAACAAAAGAAAAGAAATAAGTTAG
1428588 AACAAGTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAAAAGAAATAAGTTAGTGT
Found at i:1430034 original size:26 final size:26
Alignment explanation
Indices: 1430004--1430067 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
1429994 TATAAATTGA
*
1430004 AAATTGACATTTTGCTTAAAATAAAC
1 AAATTGATATTTTGCTTAAAATAAAC
1430030 AAATTGATATTTTGCTTAAAATAAAC
1 AAATTGATATTTTGCTTAAAATAAAC
1430056 AAATTGATATTT
1 AAATTGATATTT
1430068 AAAGAAACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (26 bp):
AAATTGATATTTTGCTTAAAATAAAC
Found at i:1430549 original size:29 final size:28
Alignment explanation
Indices: 1430494--1430648 Score: 91
Period size: 29 Copynumber: 5.4 Consensus size: 28
1430484 TAATATGGCC
* * *
1430494 AAAATAGAAACTTAAAGAACTAGAATAGAA
1 AAAATAGAAACTT-AGGGACTAAAATA-AA
*
1430524 AAAATAGAAACTTAGGGACTAAAATAGTA
1 AAAATAGAAACTTAGGGACTAAAATA-AA
** * * * *
1430553 ATTACAAAAAGTTAAAGGG-CTAAAA-ATTA
1 AAAATAGAAACTT--AGGGACTAAAATA-AA
* *
1430582 AAAATAGAAACCTCAAGGACTAAAAT-AA
1 AAAATAGAAA-CTTAGGGACTAAAATAAA
*
1430610 AAAATAGAATCTTAGGGACTAAAATAAA
1 AAAATAGAAACTTAGGGACTAAAATAAA
*
1430638 GAAAACAGAAA
1 -AAAATAGAAA
1430649 TTTAAAGGGC
Statistics
Matches: 95, Mismatches: 23, Indels: 15
0.71 0.17 0.11
Matches are distributed among these distances:
27 13 0.14
28 15 0.16
29 43 0.45
30 20 0.21
31 4 0.04
ACGTcount: A:0.59, C:0.08, G:0.14, T:0.18
Consensus pattern (28 bp):
AAAATAGAAACTTAGGGACTAAAATAAA
Found at i:1430628 original size:27 final size:28
Alignment explanation
Indices: 1430575--1430637 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
1430565 TAAAGGGCTA
*
1430575 AAAATTAAAAATAGAAACCTCAAGGACT
1 AAAATAAAAAATAGAAACCTCAAGGACT
* * *
1430603 AAAATAAAAAATAG-AATCTTAGGGACT
1 AAAATAAAAAATAGAAACCTCAAGGACT
1430630 AAAATAAA
1 AAAATAAA
1430638 GAAAACAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.60, C:0.10, G:0.11, T:0.19
Consensus pattern (28 bp):
AAAATAAAAAATAGAAACCTCAAGGACT
Found at i:1433709 original size:89 final size:89
Alignment explanation
Indices: 1433553--1433729 Score: 318
Period size: 89 Copynumber: 2.0 Consensus size: 89
1433543 CATTAGGGGT
* *
1433553 TCAGATTTTATGAATTCATTAATTATAAGACCAATGTTGTTTCAAATTTAATCCTAATGTTATTA
1 TCAGATTTTATGAATTCATTAATTACAAGACCAATGATGTTTCAAATTTAATCCTAATGTTATTA
1433618 TATTATTGAATTTTTAAATTTAGC
66 TATTATTGAATTTTTAAATTTAGC
*
1433642 TCAGGTTTTATGAATTCATTAATTACAAGACCAATGATGTTTCAAATTTAATCCTAATGTTATTA
1 TCAGATTTTATGAATTCATTAATTACAAGACCAATGATGTTTCAAATTTAATCCTAATGTTATTA
*
1433707 TATTATTTAATTTTTAAATTTAG
66 TATTATTGAATTTTTAAATTTAG
1433730 TATATTTGAT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 84 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (89 bp):
TCAGATTTTATGAATTCATTAATTACAAGACCAATGATGTTTCAAATTTAATCCTAATGTTATTA
TATTATTGAATTTTTAAATTTAGC
Found at i:1443177 original size:81 final size:81
Alignment explanation
Indices: 1443017--1443177 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
1443007 AATGGACGAC
* * * *
1443017 TCCAGGCATCACAATGAATCAACTGCACAGACAAGCGTCGCGGGAATAGATTTGGGTCAGAATAC
1 TCCAGGCATCACAATAAATCAACTGCACAGACAAGCCTCGCAGGAAGAGATTTGGGTCAGAATAC
*
1443082 TACAGACGATATTGAG
66 TACAGACGACATTGAG
* * *
1443098 TCCAGGCATCACAATAAATCAACTGCACAGACGAGCCTCGTAGGAAGAGATTTGGGTCAGAATAT
1 TCCAGGCATCACAATAAATCAACTGCACAGACAAGCCTCGCAGGAAGAGATTTGGGTCAGAATAC
* *
1443163 TGCAGATGACATTGA
66 TACAGACGACATTGA
1443178 ACTCTTGGGC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (81 bp):
TCCAGGCATCACAATAAATCAACTGCACAGACAAGCCTCGCAGGAAGAGATTTGGGTCAGAATAC
TACAGACGACATTGAG
Found at i:1444607 original size:17 final size:18
Alignment explanation
Indices: 1444585--1444618 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1444575 ATTTTTATTG
1444585 AATAAA-ATAATATTTTT
1 AATAAATATAATATTTTT
*
1444602 AATAAATATATTATTTT
1 AATAAATATAATATTTT
1444619 GGGTCGGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATAAATATAATATTTTT
Found at i:1448101 original size:45 final size:45
Alignment explanation
Indices: 1448046--1448140 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
1448036 GCACTAAGAG
1448046 TGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCAA
1 TGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCAA
*
1448091 TGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGA
1 TGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCAA
1448136 TGCAT
1 TGCAT
1448141 GGCTGGTGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (45 bp):
TGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCAA
Found at i:1448215 original size:65 final size:65
Alignment explanation
Indices: 1448082--1448241 Score: 184
Period size: 65 Copynumber: 2.5 Consensus size: 65
1448072 AATAGCCAGA
* *
1448082 GTGCATCAATGCATC-AAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAAG-GCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCT
1448145 G
65 G
* * * *
1448146 GTGCATCGATGCATCAAAGGCATTTGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAAGGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
1448209 AT
65 -G
* *
1448211 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAAGGCATTCGATGTT
1448242 CAATTTAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 24 0.29
65 55 0.67
66 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAAGGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:1450787 original size:23 final size:22
Alignment explanation
Indices: 1450759--1450838 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
1450749 GCATGGCCTT
1450759 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
1450781 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
* *
1450803 GTGTATTGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
1450825 ATGCATCGATGCAC
1 GTGCATCGATGCAC
1450839 TGTTAGGTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
21 14 0.31
22 15 0.33
23 16 0.36
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:1454707 original size:22 final size:21
Alignment explanation
Indices: 1454665--1454704 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1454655 GAGTTTATTT
1454665 TCATTTTTCAATTTTAAAACA
1 TCATTTTTCAATTTTAAAACA
1454686 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1454705 ACAATATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1456661 original size:18 final size:17
Alignment explanation
Indices: 1456607--1456655 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1456597 TTGGACTCTC
* *
1456607 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1456625 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1456643 AGTGCATTCGATG
1 AGTGCA-TCGATG
1456656 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1456826 original size:65 final size:65
Alignment explanation
Indices: 1456627--1456836 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
1456617 TGCACTAAGA
* * * *
1456627 GTGCATCGATGCATCAAGTGCATTCGATGTTT-CA-AAATAGCCA-GAGTGCATCGATGCATGGC
1 GTGCATCGATGCATCAAATGCATTCGATGTTTACATAAA-A-TCATCAGTGCATCGATGCATGGT
1456689 TG
64 TG
* *
1456691 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATC-AGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTACATAAAATCATCAGTGCATCGA-TGCATGGT-
1456755 T-
64 TG
* * ** * * *
1456756 ATGCATCGATGCATGAAATGCATTCGATGTTTAGTTTAATTCAT-GGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTACATAAAATCATCAGTGCATCGATGCATGG-TT
1456820 G
65 G
*
1456821 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
1456837 CTCTGAAAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
64 48 0.40
65 69 0.57
66 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTACATAAAATCATCAGTGCATCGATGCATGGTTG
Found at i:1458351 original size:34 final size:32
Alignment explanation
Indices: 1458290--1458352 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 32
1458280 AATTAATTTT
*
1458290 TTAATATTGTTATATTTAATGTATTTAATATC
1 TTAATATTGTTATATTTAATATATTTAATATC
* *
1458322 TTAATAATTGTTTATATTTTATATTTTTAAT
1 TTAAT-ATTG-TTATATTTAATATATTTAAT
1458353 CTAAATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 5 0.19
33 4 0.15
34 17 0.65
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (32 bp):
TTAATATTGTTATATTTAATATATTTAATATC
Found at i:1460523 original size:149 final size:150
Alignment explanation
Indices: 1460205--1460570 Score: 540
Period size: 149 Copynumber: 2.4 Consensus size: 150
1460195 CATTTTGTAC
* * * *
1460205 GAACAATCATCGAAAATGCACTTTCTTTGTAATTATGAGACTTTTTCATGAATTTCCCTCACAAA
1 GAACAATCATCGGAAATGCACTTCCTTTGTAATTAGGAGAC-TTTTCATGGATTTCCCTCACAAA
*
1460270 ATAGTGCTTCTTTAATTTTCTAGTTTAAAATTATAATATTATATTAAATTATAGAAATGCTCGGA
65 ACAGTGCTTCTTTAATTTTCTAGTTTAAAATTATAATATTATATTAAATTATAGAAATGCTCGGA
1460335 TAAAGAAAGCCCTTTTTGTGT
130 TAAAGAAAGCCCTTTTTGTGT
* *
1460356 GAACAATCCTCAGAAATGCACTTCCTTTGTAATTAGGAGACTTTTCATGGATTTCCCTCACAAAA
1 GAACAATCATCGGAAATGCACTTCCTTTGTAATTAGGAGACTTTTCATGGATTTCCCTCACAAAA
* *
1460421 CAGTG-TGTCTTTAATTTTCTAGTTTAAAATTATAATA-TATATTAACTTATATAAATGCTCGGA
66 CAGTGCT-TCTTTAATTTTCTAGTTTAAAATTATAATATTATATTAAATTATAGAAATGCTCGGA
* *
1460484 TAAAGAATGCTCTTTTTGTGT
130 TAAAGAAAGCCCTTTTTGTGT
* * * *
1460505 GAACAATCATCGGGAATGCACTTCCTTTGTAGTTAGGAGACTTTCCCATAGA-TTCTCCTCACAA
1 GAACAATCATCGGAAATGCACTTCCTTTGTAATTAGGAGACTTT-TCATGGATTTC-CCTCACAA
1460569 AA
64 AA
1460571 AGACATTAGT
Statistics
Matches: 195, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
149 87 0.45
150 72 0.37
151 36 0.18
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (150 bp):
GAACAATCATCGGAAATGCACTTCCTTTGTAATTAGGAGACTTTTCATGGATTTCCCTCACAAAA
CAGTGCTTCTTTAATTTTCTAGTTTAAAATTATAATATTATATTAAATTATAGAAATGCTCGGAT
AAAGAAAGCCCTTTTTGTGT
Found at i:1460632 original size:12 final size:11
Alignment explanation
Indices: 1460595--1460636 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
1460585 ATTTTTCACA
1460595 AAAAT-AAAAT
1 AAAATGAAAAT
*
1460605 AAACT-AAAAT
1 AAAATGAAAAT
1460615 AAAATGAAAAT
1 AAAATGAAAAT
1460626 GAAAATGAAAA
1 -AAAATGAAAA
1460637 GAGGTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 13 0.46
11 5 0.18
12 10 0.36
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAATGAAAAT
Found at i:1461955 original size:17 final size:19
Alignment explanation
Indices: 1461933--1461974 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1461923 GGCATGGGGT
1461933 ATGGTGACT-GA-CAGGGA
1 ATGGTGACTGGATCAGGGA
*
1461950 ATGGTGACTGGATCAGGGC
1 ATGGTGACTGGATCAGGGA
1461969 ATGGTG
1 ATGGTG
1461975 GGCGTTGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 2 0.09
19 11 0.50
ACGTcount: A:0.24, C:0.12, G:0.43, T:0.21
Consensus pattern (19 bp):
ATGGTGACTGGATCAGGGA
Found at i:1462183 original size:3 final size:3
Alignment explanation
Indices: 1462171--1462211 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
1462161 AAATAAATGT
1462171 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1462212 CATAATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1473370 original size:16 final size:17
Alignment explanation
Indices: 1473340--1473371 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1473330 TATAGTCGTG
1473340 GTCTATCCTATTTTAGC
1 GTCTATCCTATTTTAGC
1473357 GTCTATCC-ATTTTAG
1 GTCTATCCTATTTTAG
1473372 TCGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (17 bp):
GTCTATCCTATTTTAGC
Found at i:1474865 original size:66 final size:66
Alignment explanation
Indices: 1474741--1475020 Score: 208
Period size: 66 Copynumber: 4.2 Consensus size: 66
1474731 AGGAATAATG
** * * * * * *
1474741 GTTTCAAGAGAAACCATCTCAAGCGAGAAAAAAATATGTTTCAAAGGAAACA-ATCTCAATGTTA
1 GTTTCAAGAGAAACTGTCTCAAGGGAG-ACAAAATTTGTTCCAAGGGAAACAGATCTCAAAGTT-
1474805 TAT
64 TAT
* * *
1474808 GTTTCAAGAGAAACTGCCTTAAGGGAGACAAAATTTGTTCCGAGGGAAACAGA-CTCAAAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTCCAAGGGAAACAGATCTCAAAG-TTT
*
1474872 TT
65 AT
* * * * * * * **
1474874 TTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATTCGTTTCAAGGAAAAC-GATCTTAAAGATGG
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTCCAAGGGAAACAGATCTCAAAG-TTT
*
1474938 GT
65 AT
* ** * *
1474940 GTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTTAAGAGAAAAAGA-CTCAAAGATT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTCCAAGGGAAACAGATCTCAAAG-TT
*
1475004 TGT
64 TAT
* *
1475007 GTTTTAAGGGAAAC
1 GTTTCAAGAGAAAC
1475021 AATTTCAAAT
Statistics
Matches: 168, Mismatches: 40, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
65 2 0.01
66 106 0.63
67 58 0.35
68 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (66 bp):
GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTCCAAGGGAAACAGATCTCAAAGTTTA
T
Found at i:1478849 original size:13 final size:13
Alignment explanation
Indices: 1478816--1478861 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
1478806 TTGAATTTTT
* *
1478816 GGTCAAATTCAAT
1 GGTCAAAGTCAAC
1478829 GAGTCAAAGTCAAC
1 G-GTCAAAGTCAAC
1478843 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
1478856 GGTCAA
1 GGTCAA
1478862 CGATCAGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (13 bp):
GGTCAAAGTCAAC
Found at i:1479619 original size:4 final size:4
Alignment explanation
Indices: 1479610--1479639 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1479600 ACCAAATTAC
1479610 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1479640 TCCAGGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:1489751 original size:18 final size:18
Alignment explanation
Indices: 1489728--1489763 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1489718 AGGGTTCTAT
* *
1489728 GTGGTCCTTTGGGACATA
1 GTGGTCCATCGGGACATA
1489746 GTGGTCCATCGGGACATA
1 GTGGTCCATCGGGACATA
1489764 TGTGATATGT
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:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (18 bp):
GTGGTCCATCGGGACATA
Found at i:1492939 original size:15 final size:15
Alignment explanation
Indices: 1492919--1492949 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1492909 ACATTTTTCC
1492919 ACAAAAATAAAATAA
1 ACAAAAATAAAATAA
1492934 ACAAAAATAAAATAA
1 ACAAAAATAAAATAA
1492949 A
1 A
1492950 AATGAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (15 bp):
ACAAAAATAAAATAA
Found at i:1493438 original size:28 final size:29
Alignment explanation
Indices: 1493388--1493442 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
1493378 TATAATATAT
* *
1493388 AAGTGACTAAATTAAAATTAATAAAACTA
1 AAGTGACTAAAATAAAATAAATAAAACTA
1493417 AAGTG-CTAAAATAAAATAAATAAAAC
1 AAGTGACTAAAATAAAATAAATAAAAC
1493443 ATAGGGATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (29 bp):
AAGTGACTAAAATAAAATAAATAAAACTA
Found at i:1494351 original size:17 final size:17
Alignment explanation
Indices: 1494331--1494380 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
1494321 CGGGTCAGGT
*
1494331 CCCTCTTTAGGTCGGGC
1 CCCTCTTTGGGTCGGGC
**
1494348 CCCTCTTTGGGTCGGAT
1 CCCTCTTTGGGTCGGGC
1494365 CCCTCTTTGGGTCGGG
1 CCCTCTTTGGGTCGGG
1494381 TTATACACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.04, C:0.32, G:0.32, T:0.32
Consensus pattern (17 bp):
CCCTCTTTGGGTCGGGC
Found at i:1496034 original size:4 final size:4
Alignment explanation
Indices: 1496025--1496051 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1496015 GACTACTAAT
1496025 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1496052 CATGTCCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1496280 original size:25 final size:25
Alignment explanation
Indices: 1496252--1496310 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
1496242 TTTGTCCTCT
*
1496252 AGCCACCGCTGCTCACAATGGATCC
1 AGCCACCGCGGCTCACAATGGATCC
* * **
1496277 AGCCGCCACGGCTCACGGTGGATCC
1 AGCCACCGCGGCTCACAATGGATCC
*
1496302 AGCAACCGC
1 AGCCACCGC
1496311 CGTGGTCTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.41, G:0.25, T:0.12
Consensus pattern (25 bp):
AGCCACCGCGGCTCACAATGGATCC
Found at i:1500077 original size:14 final size:14
Alignment explanation
Indices: 1500058--1500084 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1500048 ATTAAAACCT
1500058 TTTGCATTTGCATC
1 TTTGCATTTGCATC
1500072 TTTGCATTTGCAT
1 TTTGCATTTGCAT
1500085 TCGCATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (14 bp):
TTTGCATTTGCATC
Found at i:1500083 original size:20 final size:20
Alignment explanation
Indices: 1500058--1500112 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
1500048 ATTAAAACCT
* *
1500058 TTTGCATTTGCATCTTTGCA
1 TTTGCATTCGCATATTTGCA
1500078 TTTGCATTCGCATATTTGCA
1 TTTGCATTCGCATATTTGCA
1500098 TTTGTGCATTCGCAT
1 -TT-TGCATTCGCAT
1500113 CTCTACATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 18 0.58
21 2 0.06
22 11 0.35
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.47
Consensus pattern (20 bp):
TTTGCATTCGCATATTTGCA
Found at i:1500121 original size:22 final size:22
Alignment explanation
Indices: 1500080--1500121 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1500070 TCTTTGCATT
* *
1500080 TGCATTCGCATATTTGCATTTG
1 TGCATTCGCATATCTACATTTG
*
1500102 TGCATTCGCATCTCTACATT
1 TGCATTCGCATATCTACATT
1500122 ACACATTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (22 bp):
TGCATTCGCATATCTACATTTG
Found at i:1503350 original size:38 final size:38
Alignment explanation
Indices: 1503298--1503388 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 38
1503288 TATAAGGCTT
* * *
1503298 GTTTTTCTAGAAACCTCAAT-TTAATCTTTCTTAATATC
1 GTTTCTCTAGAAACCTCAATCTT-ATCTTTCGTAAGATC
* * * *
1503336 GTTTCTCTAGAAACCTTAGTCTTGTCTTTCGTAAGATT
1 GTTTCTCTAGAAACCTCAATCTTATCTTTCGTAAGATC
1503374 GTTTCTCTAGAAACC
1 GTTTCTCTAGAAACC
1503389 AACTTTGTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 43 0.96
39 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (38 bp):
GTTTCTCTAGAAACCTCAATCTTATCTTTCGTAAGATC
Found at i:1504089 original size:130 final size:128
Alignment explanation
Indices: 1503951--1504769 Score: 652
Period size: 130 Copynumber: 6.3 Consensus size: 128
1503941 ATGTACCTCA
* * * * *
1503951 ATTTAATCTTCCCTGAAGAGCAGTGAAGTGAATCAAAGTTTCTAGATCTGATCTATCTCAAGAGT
1 ATTTAATCTTCCCTGAAGAGTAGTGAAGTGAATCAAAGTTTCCAGATCTGATCTACCTGAAGAGC
** *
1504016 AGCGGAACATATCATTTTTTCCAGATTTGATCTTCGCTAAAGAGTAGTGAAACAAATCAACCCTG
66 AGCGGAACATATCATTTTTT-CAGATTTGATCTTC-CTAAAGAACAGTGAAGCAAATCAACCCTG
* * ** * * *
1504081 ATTTAATCTTTCCTAAAGAAAAGTAAAGTGAATCAAAGTTAT-CATATCTGATCTACCTTGGAGA
1 ATTTAATCTTCCCTGAAGAGTAGTGAAGTGAATCAAAGTT-TCCAGATCTGATCTACC-TGAAGA
** * * * * * * * *
1504145 GCAGCATATCAGAT-TTTTTTTAAGATTTGATATTTCTTAAAGAGCAGTGAAGCAAATCAACCTT
64 GCAGCGGAACATATCATTTTTTCAGATTTGAT-CTTCCTAAAGAACAGTGAAGCAAATCAACCCT
1504209 G
128 G
** * * * *
1504210 ATTTAATCTT-TTTCGAAGAGTAATGAAGTGAATCAAAGTTTCCAGATTTGATCTACAATGAATA
1 ATTTAATCTTCCCT-GAAGAGTAGTGAAGTGAATCAAAGTTTCCAGATCTGATCTAC-CTGAAGA
* * * * * *
1504274 GAAGCGGAGCAAATC-TCTTTTTCATATTTGATCTTCCCTTAAGAATAGTGAAGCAAATCAACCC
64 GCAGCGGAACATATCAT-TTTTTCAGATTTGATCTT-CCTAAAGAACAGTGAAGCAAATCAACCC
*
1504338 CG
127 TG
* ** * *
1504340 --GT-ATCTTTTCTTAA-A-TCAGTAAAGTGAATCAAAGTTTCCAGATCTGATCTACCTTGAAGA
1 ATTTAATCTTCCCTGAAGAGT-AGTGAAGTGAATCAAAGTTTCCAGATCTGATCTACC-TGAAGA
** * * * * *
1504400 GCAGTAGAGCATATCCCTTTTTTCAAATTTGATCTTTCCTAAAGAGCAGTGAAGCAAATTAACCC
64 GCAGCGGAACATAT-CATTTTTTCAGATTTGATC-TTCCTAAAGAACAGTGAAGCAAATCAACCC
*
1504465 CG
127 TG
* * * * * *
1504467 ATTTAATCTTCCCTAAAGATTAGTTAAGTGAATCAAAGTTTCCAGATCTAATATACCCTAAAGAG
1 ATTTAATCTTCCCTGAAGAGTAGTGAAGTGAATCAAAGTTTCCAGATCTGATCTA-CCTGAAGAG
* * * * * * * *
1504532 CAACGAAACATATCCTTTTTTTAAGA-TTGATCTTCCTTGAAGAATAGTGAAGAAAATCAATCCT
65 CAGCGGAACATAT-CATTTTTTCAGATTTGATCTTCC-TAAAGAACAGTGAAGCAAATCAACCCT
*
1504596 A
128 G
* * *
1504597 ATTTAATCTTCCCTGAAGAGTAGTGAAGTGAATCAAAATTTTCAGATCTGATATACCCTGAAGAG
1 ATTTAATCTTCCCTGAAGAGTAGTGAAGTGAATCAAAGTTTCCAGATCTGATCTA-CCTGAAGAG
** * * * * * *
1504662 CAGCACAAAATAACCATTTTTCCATATTTGATCTCCCCTAAAGAACAGTGAAGCAAATCGA-CCT
65 CAGCGGAACAT-ATCATTTTTTCAGATTTGATCT-TCCTAAAGAACAGTGAAGCAAATCAACCCT
1504726 CG
128 -G
* * * *
1504728 ATTCAATCTTCCCTGAACAATAATGAAGTGAATCAAAGTTTC
1 ATTTAATCTTCCCTGAAGAGTAGTGAAGTGAATCAAAGTTTC
1504770 AATAAATGAT
Statistics
Matches: 546, Mismatches: 117, Indels: 51
0.76 0.16 0.07
Matches are distributed among these distances:
125 1 0.00
126 48 0.09
127 49 0.09
128 8 0.01
129 98 0.18
130 204 0.37
131 133 0.24
132 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (128 bp):
ATTTAATCTTCCCTGAAGAGTAGTGAAGTGAATCAAAGTTTCCAGATCTGATCTACCTGAAGAGC
AGCGGAACATATCATTTTTTCAGATTTGATCTTCCTAAAGAACAGTGAAGCAAATCAACCCTG
Found at i:1505374 original size:15 final size:15
Alignment explanation
Indices: 1505354--1505389 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
1505344 TGGGGCATTA
1505354 AATGCCTTGTTTCAG
1 AATGCCTTGTTTCAG
1505369 AATGCCTTGTTTCAG
1 AATGCCTTGTTTCAG
1505384 AATGCC
1 AATGCC
1505390 CATGCTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (15 bp):
AATGCCTTGTTTCAG
Found at i:1513594 original size:22 final size:20
Alignment explanation
Indices: 1513569--1513620 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1513559 ATCGAAGTGG
1513569 GTATCGATACCATAGAAGAGAA
1 GTATCGATACCATAG--GAGAA
* **
1513591 GTATCGGTACTGTAGGAGAA
1 GTATCGATACCATAGGAGAA
1513611 GTATCGATAC
1 GTATCGATAC
1513621 TAGTGCACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 14 0.54
22 12 0.46
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (20 bp):
GTATCGATACCATAGGAGAA
Found at i:1514238 original size:22 final size:23
Alignment explanation
Indices: 1514153--1514242 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
1514143 GTTGAGGGTT
1514153 CTATGTGGTCCTTTGGGACAAAA
1 CTATGTGGTCCTTTGGGACAAAA
* *
1514176 CTATGTGATCCTTCGGGACAAAA
1 CTATGTGGTCCTTTGGGACAAAA
*
1514199 CTATGTGGT-ATTTCGGGACAAAA
1 CTATGTGGTCCTTT-GGGACAAAA
*
1514222 -TTTGTGGTCCTTTGGGA-AAAA
1 CTATGTGGTCCTTTGGGACAAAA
1514243 TATCTGGCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.07
22 13 0.22
23 41 0.71
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCCTTTGGGACAAAA
Found at i:1519713 original size:21 final size:21
Alignment explanation
Indices: 1519687--1519735 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1519677 GTCAGTGGTT
* **
1519687 ACCTTAAGATTGTCTTGGATA
1 ACCTTAACATTGTCTTCCATA
*
1519708 ACCTTAACTTTGTCTTCCATA
1 ACCTTAACATTGTCTTCCATA
1519729 ACCTTAA
1 ACCTTAA
1519736 TCAAATCGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (21 bp):
ACCTTAACATTGTCTTCCATA
Found at i:1523317 original size:52 final size:52
Alignment explanation
Indices: 1523251--1523353 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
1523241 ATTATAATAT
* *
1523251 CCTTGTAATTAGTTGTAATCCCCCAACTCTAGGCTAGTTTCCTATTTCTGTG
1 CCTTATAATTAGTTGTAATCCCCCAACTCTAGGCTAGTTTCATATTTCTGTG
*
1523303 CCTTATAATTAGTTGTAATTCCCCAACTCTAGGCTAGTTTCATATTTCTGT
1 CCTTATAATTAGTTGTAATCCCCCAACTCTAGGCTAGTTTCATATTTCTGT
1523354 ATGCCCAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (52 bp):
CCTTATAATTAGTTGTAATCCCCCAACTCTAGGCTAGTTTCATATTTCTGTG
Found at i:1530644 original size:29 final size:29
Alignment explanation
Indices: 1530593--1530651 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
1530583 TAATTGAAAC
* *
1530593 AAAATTCAAAGTTTAATGCTATAACTGAT
1 AAAATTCAAAGTTCAATGCTATAAATGAT
* * *
1530622 AAAATTGAAAGTTCAGTGGTATAAATGAT
1 AAAATTCAAAGTTCAATGCTATAAATGAT
1530651 A
1 A
1530652 TACTGCCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (29 bp):
AAAATTCAAAGTTCAATGCTATAAATGAT
Found at i:1543891 original size:30 final size:30
Alignment explanation
Indices: 1543855--1543919 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
1543845 AGAACCGATG
* *
1543855 GTTCACACCAGTTTTACCGGTTTTCAGCTT
1 GTTCACACCAGTTTTACCGGTTCTCAGCCT
* **
1543885 GTTCACACCGGTTTTATTGGTTCTCAGCCT
1 GTTCACACCAGTTTTACCGGTTCTCAGCCT
1543915 GTTCA
1 GTTCA
1543920 TTGCAAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.40
Consensus pattern (30 bp):
GTTCACACCAGTTTTACCGGTTCTCAGCCT
Found at i:1546333 original size:25 final size:24
Alignment explanation
Indices: 1546286--1546333 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
1546276 AATTACTTAA
* * *
1546286 TTAAATTTTCAAATTTCAGTTGAC
1 TTAAATTTTCAAATATAAATTGAC
1546310 TTAAACTTTTCAAATATAAATTGA
1 TTAAA-TTTTCAAATATAAATTGA
1546334 ATTTGAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (24 bp):
TTAAATTTTCAAATATAAATTGAC
Found at i:1547649 original size:21 final size:21
Alignment explanation
Indices: 1547607--1547647 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1547597 AAGTGGAGGA
*
1547607 AAAATATATTAAATTTAGTTT
1 AAAATATATTAAACTTAGTTT
1547628 AAAA-ATATTAAACTTAGTTT
1 AAAATATATTAAACTTAGTTT
1547648 TATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (21 bp):
AAAATATATTAAACTTAGTTT
Found at i:1547649 original size:26 final size:25
Alignment explanation
Indices: 1547620--1547700 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 25
1547610 ATATATTAAA
1547620 TTTAGTTTAAAAATATTAAACTTAGT
1 TTTAGTTTAAAAATATTAAACTTA-T
* ***
1547646 TTTATTTTAAATATTATATTGGTC-TAT
1 TTTAGTTTAAA-A--ATATTAAACTTAT
*
1547673 TTTAGTTTAAAAATATTAAATTTAT
1 TTTAGTTTAAAAATATTAAACTTAT
1547698 TTT
1 TTT
1547701 TAAACTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
24 5 0.12
25 6 0.14
26 11 0.26
27 12 0.29
28 2 0.05
29 6 0.14
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.54
Consensus pattern (25 bp):
TTTAGTTTAAAAATATTAAACTTAT
Found at i:1550882 original size:27 final size:27
Alignment explanation
Indices: 1550824--1550883 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
1550814 AGTTGTATTC
* * * **
1550824 AAATTGGTTGATTTTTTATTTATTTCT
1 AAATTAGTTGATTTTTTATTAAGTAAT
*
1550851 GAATTAGTTGATTTTTTATTAAGTAAT
1 AAATTAGTTGATTTTTTATTAAGTAAT
1550878 AAATTA
1 AAATTA
1550884 TATATTTATG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.55
Consensus pattern (27 bp):
AAATTAGTTGATTTTTTATTAAGTAAT
Found at i:1556994 original size:59 final size:59
Alignment explanation
Indices: 1556908--1557021 Score: 160
Period size: 59 Copynumber: 1.9 Consensus size: 59
1556898 AAAAAAAAAC
1556908 TTAATGTGGACCTTGAACTATTATTGCACTCAATGTCACCA-TAAAATTTAGAAAAATTT
1 TTAATGTGGACCTTGAACTATTATTGCACTCAATGTCA-CATTAAAATTTAGAAAAATTT
* * * *
1556967 TTAATGT-GACCTTTGAACTATTTTTGCACTCATTGTGATATTAAAATTTAGAAAA
1 TTAATGTGGACC-TTGAACTATTATTGCACTCAATGTCACATTAAAATTTAGAAAA
1557022 GAACTCAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 5 0.10
59 44 0.90
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (59 bp):
TTAATGTGGACCTTGAACTATTATTGCACTCAATGTCACATTAAAATTTAGAAAAATTT
Found at i:1557294 original size:3 final size:3
Alignment explanation
Indices: 1557286--1557314 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1557276 AAATTACTAA
1557286 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1557315 ATCTCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1557643 original size:19 final size:22
Alignment explanation
Indices: 1557619--1557660 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1557609 TAAGCCATCT
1557619 AAAATATT-T-AA-AAATAAAA
1 AAAATATTATAAACAAATAAAA
1557638 AAAATATTATAAACAAATAAAA
1 AAAATATTATAAACAAATAAAA
1557660 A
1 A
1557661 TAATTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 1 0.05
21 2 0.10
22 9 0.45
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATATTATAAACAAATAAAA
Found at i:1562121 original size:3 final size:3
Alignment explanation
Indices: 1562113--1562163 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
1562103 TATGAATAAG
1562113 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1562161 TAT
1 TAT
1562164 AAATAGACGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1567035 original size:24 final size:24
Alignment explanation
Indices: 1566998--1567044 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1566988 TGTCATTTCG
*
1566998 AGAGGATTGGGAGGAGGGTTTGGA
1 AGAGGATTGAGAGGAGGGTTTGGA
* *
1567022 AGAGGATTTAGAGGTGGGTTTGG
1 AGAGGATTGAGAGGAGGGTTTGG
1567045 TGGTTGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.51, T:0.26
Consensus pattern (24 bp):
AGAGGATTGAGAGGAGGGTTTGGA
Found at i:1567737 original size:22 final size:21
Alignment explanation
Indices: 1567711--1567767 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
1567701 ATACTAGCTT
1567711 AGTAGTATCGATACCTA-GCAA
1 AGTAGTATCGATACCTATG-AA
* *
1567732 GAGTAGTATTGATA-CTATGTA
1 -AGTAGTATCGATACCTATGAA
1567753 AGTAGTATCGATACC
1 AGTAGTATCGATACC
1567768 AAGTGCACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 12 0.40
21 5 0.17
22 13 0.43
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (21 bp):
AGTAGTATCGATACCTATGAA
Found at i:1573563 original size:44 final size:44
Alignment explanation
Indices: 1573495--1573584 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
1573485 TGCAACCCAA
* *
1573495 TAGTATCGATAGCGTTCAACGAGTATCGATACTACTATGTATAG
1 TAGTATCGATAGCCTTCAACGAGTATCAATACTACTATGTATAG
*
1573539 TAGTATCGATA-CCTTCCAAGGAGTATCAATACTACTATGTATAG
1 TAGTATCGATAGCCTT-CAACGAGTATCAATACTACTATGTATAG
1573583 TA
1 TA
1573585 TAGTAGTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (44 bp):
TAGTATCGATAGCCTTCAACGAGTATCAATACTACTATGTATAG
Found at i:1579418 original size:64 final size:64
Alignment explanation
Indices: 1579325--1579444 Score: 222
Period size: 64 Copynumber: 1.9 Consensus size: 64
1579315 TACAACAATG
* *
1579325 TTGTCTATATTTTTGCCTTTTAGAAATGAATAATTCTTTTTACTCAATCCCCATACACAATGTT
1 TTGTCTATATTTTTACCCTTTAGAAATGAATAATTCTTTTTACTCAATCCCCATACACAATGTT
1579389 TTGTCTATATTTTTACCCTTTAGAAATGAATAATTCTTTTTACTCAATCCCCATAC
1 TTGTCTATATTTTTACCCTTTAGAAATGAATAATTCTTTTTACTCAATCCCCATAC
1579445 GCATTCAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (64 bp):
TTGTCTATATTTTTACCCTTTAGAAATGAATAATTCTTTTTACTCAATCCCCATACACAATGTT
Found at i:1586555 original size:26 final size:28
Alignment explanation
Indices: 1586503--1586563 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 28
1586493 AACGTGTTAG
*
1586503 ATAAAAATGTAAGAAATAAATAAATTAA
1 ATAAAAATGTAAGAAATAAACAAATTAA
*
1586531 ATTAAAATG-AAGAAA-AAACAAATTAA
1 ATAAAAATGTAAGAAATAAACAAATTAA
1586557 ATAAAAA
1 ATAAAAA
1586564 AATAAGATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 16 0.53
27 6 0.20
28 8 0.27
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (28 bp):
ATAAAAATGTAAGAAATAAACAAATTAA
Found at i:1586636 original size:29 final size:28
Alignment explanation
Indices: 1586604--1586677 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
1586594 TAAGTAATAT
*
1586604 AAAAAATATATAAAAAAAGAAAAAGAAGA
1 AAAAAATATATAAAAAAACAAAAA-AAGA
* *
1586633 AAAAAATATATAAATAAAACAAATAAATA
1 AAAAAATATATAAA-AAAACAAAAAAAGA
*
1586662 AAATAATA-ATAAAAAA
1 AAAAAATATATAAAAAA
1586678 GTAAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 3 0.08
28 5 0.12
29 24 0.60
30 8 0.20
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (28 bp):
AAAAAATATATAAAAAAACAAAAAAAGA
Found at i:1586656 original size:17 final size:16
Alignment explanation
Indices: 1586543--1586689 Score: 57
Period size: 17 Copynumber: 8.5 Consensus size: 16
1586533 TAAAATGAAG
*
1586543 AAAAAACAAATTAAATA
1 AAAAAATAAA-TAAATA
*
1586560 AAAAAATAAGATAAAGAA
1 AAAAAATAA-ATAAA-TA
1586578 AACAAAGATAAAATAGTAAGTA
1 AA-AAA-AT-AAATA--AA-TA
* *
1586600 ATATAAA-AAATATATA
1 A-AAAAATAAATAAATA
* * *
1586616 AAAAAAGAAAAAGAAGA
1 AAAAAATAAATA-AATA
*
1586633 AAAAAATATATAAATA
1 AAAAAATAAATAAATA
1586649 AAACAAATAAATAAA-A
1 AAA-AAATAAATAAATA
* *
1586665 TAATAATAAA-AAAGTA
1 AAAAAATAAATAAA-TA
1586681 AAAATAATA
1 AAAA-AATA
1586690 TATATATATA
Statistics
Matches: 98, Mismatches: 18, Indels: 28
0.68 0.12 0.19
Matches are distributed among these distances:
14 3 0.03
15 10 0.10
16 19 0.19
17 38 0.39
18 4 0.04
19 8 0.08
20 5 0.05
21 3 0.03
22 7 0.07
23 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAAAATAAATAAATA
Found at i:1586664 original size:46 final size:49
Alignment explanation
Indices: 1586599--1586699 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 49
1586589 AATAGTAAGT
* *
1586599 AATATAAAAAATATATAAAAAAAGAA-AAAGAAG-AAAAA-AATATATA
1 AATATAAAAAATAAATAAAAAAAGAATAAAAAAGTAAAAATAATATATA
* *
1586645 AATA-AAACAAATAAATAAAATAATAATAAAAAAGTAAAAATAATATATA
1 AATATAAA-AAATAAATAAAAAAAGAATAAAAAAGTAAAAATAATATATA
*
1586694 TATATA
1 AATATA
1586700 TATATAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
45 3 0.07
46 19 0.42
47 6 0.13
48 5 0.11
49 11 0.24
50 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (49 bp):
AATATAAAAAATAAATAAAAAAAGAATAAAAAAGTAAAAATAATATATA
Found at i:1586732 original size:37 final size:34
Alignment explanation
Indices: 1586653--1586745 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 34
1586643 TAAATAAAAC
*
1586653 AAATAAATAAAATAATAATAAAAAAGTAAAAATAAT
1 AAATATAT-AAAT-ATAATAAAAAAGTAAAAATAAT
* *
1586689 ATATATATATATATATAATAAAAACA-TAAAAAATAGT
1 A-A-ATATATAAATATAATAAAAA-AGT-AAAAATAAT
1586726 AAATATATAAAT-TAATAAAA
1 AAATATATAAATATAATAAAA
1586746 CGGATAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
34 8 0.16
35 9 0.18
36 13 0.27
37 14 0.29
38 5 0.10
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (34 bp):
AAATATATAAATATAATAAAAAAGTAAAAATAAT
Found at i:1586806 original size:25 final size:25
Alignment explanation
Indices: 1586753--1586809 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
1586743 AAACGGATAA
* * * *
1586753 TAAAAAAATAATATATATAGTAATC
1 TAAAAAAAAAAAATATATACTAAAC
*
1586778 TAAAAAAAAAAAATATATACTAAAG
1 TAAAAAAAAAAAATATATACTAAAC
1586803 TAAAAAA
1 TAAAAAA
1586810 TGCATAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (25 bp):
TAAAAAAAAAAAATATATACTAAAC
Found at i:1587371 original size:37 final size:37
Alignment explanation
Indices: 1587321--1587395 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
1587311 ATGCTTGTGG
*
1587321 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTACTAAAACTCT
1587358 ATCCTATTTTTAGGAGTTTGAATCCTACTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTACTAAAACTCT
1587395 A
1 A
1587396 ACGTTTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTACTAAAACTCT
Found at i:1587870 original size:34 final size:35
Alignment explanation
Indices: 1587832--1587914 Score: 141
Period size: 34 Copynumber: 2.4 Consensus size: 35
1587822 AAGGTCTTGA
*
1587832 GTTTCAAGAGAAACATTTTCAAAGGTTTTTTT-GT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
1587866 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
*
1587901 GTTTCAAGATAAAC
1 GTTTCAAGAGAAAC
1587915 TGTCCCAAGG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 31 0.67
35 15 0.33
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.40
Consensus pattern (35 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
Found at i:1588000 original size:67 final size:67
Alignment explanation
Indices: 1587899--1588026 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 67
1587889 GGTTTTTTTC
* * * *
1587899 GTGTTTCAAGATAAACTGTCCCAAGGGAGGCAAAATTTTGTTTCAAGAGAAACATAT-TCAAAGA
1 GTGTTTCAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGTTTCAAGAGAAAC-TATCTCAAAGA
1587963 TTG
65 TTG
* * *
1587966 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGGAAACTATCTCAA
1 GTGTTTCAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAA
1588027 GGGAGACGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
66 3 0.06
67 50 0.94
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (67 bp):
GTGTTTCAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAAGAT
TG
Found at i:1588076 original size:102 final size:104
Alignment explanation
Indices: 1587911--1588105 Score: 279
Period size: 102 Copynumber: 1.9 Consensus size: 104
1587901 GTTTCAAGAT
* * * *
1587911 AAACTGTCCCAAGGGAGGCAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAG
1 AAACTATCCCAAGGGAGACAAAATTTTATTTCAAGAGAAACAGATTCAAAGATTGGTGTTTCAAG
1587976 AGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGG
66 AGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGG
* * *
1588015 AAACTATCTCAAGGGAGACGAAA-TTTATTTCAAG-GAAAACAGATTCAAAGATT-TTGTTTCAA
1 AAACTATCCCAAGGGAGACAAAATTTTATTTCAAGAG-AAACAGATTCAAAGATTGGTGTTTCAA
* *
1588077 GGGAAACTGTCTCAAGAGAGATAAAACTT
65 GAGAAACTGTCTCAAGAGAGACAAAACTT
1588106 GGAAACTGTC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 36 0.44
103 26 0.32
104 19 0.23
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (104 bp):
AAACTATCCCAAGGGAGACAAAATTTTATTTCAAGAGAAACAGATTCAAAGATTGGTGTTTCAAG
AGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGG
Found at i:1588440 original size:106 final size:106
Alignment explanation
Indices: 1588253--1588513 Score: 420
Period size: 106 Copynumber: 2.5 Consensus size: 106
1588243 GTATTGTTTT
* *
1588253 GAGTCCAATATCC-TC-CGTCGTGAAGTTGAAATTGGCTCTGGAACT-GGAAATTGTATGTTGAC
1 GAGTCCAATATCCTTCAC-T-GTGAAGTTGAAATTGGCTTTGAAACTGGGAAATTGTATGTTGAC
*
1588315 AACCAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTC
64 AACCAGTCGTCCCTTCGCTGTGAAGTTGAACTTATGTTGTCTC
* *
1588358 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGTTTTGAAACTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTTTGAAACTGGGAAATTGTATGTTGACAA
1588423 CCAGTCGTCCCTTCGCTGTGAAGTTGAACTTATGTTGTCTC
66 CCAGTCGTCCCTTCGCTGTGAAGTTGAACTTATGTTGTCTC
* *
1588464 GAGTCTAATATCCTTCACTGTGAAGTTGAAATTGGCTTTGAAATTGGGAA
1 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTTTGAAACTGGGAA
1588514 GCCCGTTTGT
Statistics
Matches: 145, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
105 36 0.25
106 108 0.74
107 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTTTGAAACTGGGAAATTGTATGTTGACAA
CCAGTCGTCCCTTCGCTGTGAAGTTGAACTTATGTTGTCTC
Found at i:1589265 original size:33 final size:32
Alignment explanation
Indices: 1589175--1589288 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 32
1589165 ATTCATATCA
* * * * *
1589175 TGATGTTGAAT-TCCAAAGATGCTCCAATATT
1 TGATGTTGAATCTCAAAAAATACCCCAACATT
* *
1589206 CGATGTTGAATCTAAAAAAATACCCCAACATT
1 TGATGTTGAATCTCAAAAAATACCCCAACATT
* *
1589238 TGATGTTAAATCTCCAAAAAATTCCCCAACATT
1 TGATGTTGAATCT-CAAAAAATACCCCAACATT
1589271 TGATGTTGAATCTTCAAA
1 TGATGTTGAATC-TCAAA
1589289 GATGCCCTCA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
31 10 0.15
32 25 0.37
33 32 0.47
34 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (32 bp):
TGATGTTGAATCTCAAAAAATACCCCAACATT
Found at i:1590420 original size:13 final size:12
Alignment explanation
Indices: 1590369--1590428 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
1590359 TTTTCCTTTG
*
1590369 TTTTTGTTTCTC
1 TTTTTTTTTCTC
1590381 TTTTTTATTTTCTC
1 -TTTTT-TTTTCTC
*
1590395 TTTACTTTTTCT-
1 TTT-TTTTTTCTC
*
1590407 TTGTTTTTTCTC
1 TTTTTTTTTCTC
1590419 TTTTTCTTTT
1 TTTTT-TTTT
1590429 TTTGATTGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 7 0.18
12 6 0.16
13 18 0.47
14 7 0.18
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:1593482 original size:26 final size:27
Alignment explanation
Indices: 1593444--1593500 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
1593434 ATACAAATGT
*
1593444 AAGAAATAAATAAATTAAATTAAAAAG
1 AAGAAATAAATAAATTAAATAAAAAAG
*
1593471 AAGAAA-AAATAAATTAAATAAAAAAT
1 AAGAAATAAATAAATTAAATAAAAAAG
1593497 AAGA
1 AAGA
1593501 TAAAGAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 22 0.79
27 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (27 bp):
AAGAAATAAATAAATTAAATAAAAAAG
Found at i:1594702 original size:14 final size:14
Alignment explanation
Indices: 1594683--1594709 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1594673 CCCCTTACTC
1594683 TAACACTTCTCCCT
1 TAACACTTCTCCCT
1594697 TAACACTTCTCCC
1 TAACACTTCTCCC
1594710 ATTTAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.44, G:0.00, T:0.33
Consensus pattern (14 bp):
TAACACTTCTCCCT
Found at i:1596588 original size:21 final size:21
Alignment explanation
Indices: 1596559--1596613 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
1596549 TCATGGGGGT
*
1596559 ATCGATTCCCT-AAAGGAGGGA
1 ATCGGTTCCCTCAAAGGA-GGA
1596580 ATCGGTTCCCATTCAAAGGAGGA
1 ATCGGTTCCC--TCAAAGGAGGA
1596603 ATCGGTTCCCT
1 ATCGGTTCCCT
1596614 TATGGGGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 10 0.33
23 14 0.47
24 6 0.20
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (21 bp):
ATCGGTTCCCTCAAAGGAGGA
Found at i:1596631 original size:20 final size:20
Alignment explanation
Indices: 1596553--1596633 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
1596543 CAGAACTCAT
* *
1596553 GGGGGTATCGATTCCCTAAA
1 GGGGGAATCGATTCCCTTAA
*
1596573 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGATTCCC-TT--AA
* * *
1596597 GGAGGAATCGGTTCCCTTAT
1 GGGGGAATCGATTCCCTTAA
*
1596617 GGGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
1596634 CTGCCAAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 17 0.35
21 12 0.24
22 3 0.06
23 13 0.27
24 4 0.08
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTTAA
Found at i:1600154 original size:64 final size:64
Alignment explanation
Indices: 1600086--1600262 Score: 196
Period size: 64 Copynumber: 2.8 Consensus size: 64
1600076 TAAAATAAAG
** *
1600086 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGA-A
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAAT-ACA
* * * *
1600150 ACATCGAATGCAA-TCGGTGCATCGATGTAAAAGGAGTGCATCGATGCATCCCAGCAATAATACT
1 ACATCGAATGCAATTC-GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATACA
* ** ** * *
1600214 ACATCGAATACCTTTTATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCAT
1600263 ACCTTCATTA
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
63 3 0.03
64 89 0.96
65 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (64 bp):
ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATACA
Found at i:1600810 original size:31 final size:31
Alignment explanation
Indices: 1600772--1601055 Score: 424
Period size: 31 Copynumber: 9.2 Consensus size: 31
1600762 AGAGTCGAGG
1600772 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1600803 GTTTACATATGTTTAAAGGCACATATAAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1600834 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
** *
1600865 GTTTGTATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1600896 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* ** * *
1600927 ATTTGTATATGTTTAAAGACATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
1600958 ATCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* **
1600989 ATTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1601020 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1601051 GTTTA
1 GTTTA
1601056 TATTGTGACC
Statistics
Matches: 225, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 225 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:1600850 original size:62 final size:62
Alignment explanation
Indices: 1600775--1601054 Score: 470
Period size: 62 Copynumber: 4.5 Consensus size: 62
1600765 GTCGAGGGTT
** *
1600775 TACATATGTTTAAAGGCACATATGAACAGTTTACATATGTTTAAAGGCACATATAAACAGTC
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
*
1600837 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAATAGTC
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
* * * *
1600899 TACATATGTTTAAAGGCACATATGAACAATTTGTATATGTTTAAAGACATATATGAACAATC
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
* *
1600961 TACATATGTTTAAAGGCACATATGAACAATTTGTATATGTTTAAAGGCACATATGAACAGTT
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
1601023 TACATATGTTTAAAGGCACATATGAACAGTTT
1 TACATATGTTTAAAGGCACATATGAACAGTTT
1601055 ATATTGTGAC
Statistics
Matches: 204, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 204 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (62 bp):
TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
Found at i:1604299 original size:64 final size:64
Alignment explanation
Indices: 1604163--1604287 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 64
1604153 TAAAATAAAG
* * * ** *
1604163 ACATCAAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAA
1 ACATCGAATGCAATTCGTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAATGAA
1604227 ACATCGAATGCAA-TCGGTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAAT
1 ACATCGAATGCAATTC-GTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAAT
1604288 ACTACATCGA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 2 0.04
64 52 0.96
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (64 bp):
ACATCGAATGCAATTCGTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAATGAA
Found at i:1604887 original size:31 final size:31
Alignment explanation
Indices: 1604849--1605132 Score: 460
Period size: 31 Copynumber: 9.2 Consensus size: 31
1604839 AGAGTCGAGG
1604849 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1604880 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1604911 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
1604942 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1604973 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
1605004 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
1605035 ATCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
1605066 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
1605097 GTTTGCATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1605128 GTTTA
1 GTTTA
1605133 TATTGTGACC
Statistics
Matches: 232, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 232 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:1608901 original size:25 final size:24
Alignment explanation
Indices: 1608873--1608924 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
1608863 TAAAACAAAT
1608873 AAATAAAATACTA-ATAAAAAAGTAA
1 AAATAAAATA-TATATAAAAAA-TAA
* *
1608898 AAATAATATATATATATAAAATAA
1 AAATAAAATATATATAAAAAATAA
1608922 AAA
1 AAA
1608925 CATAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (24 bp):
AAATAAAATATATATAAAAAATAA
Found at i:1609600 original size:37 final size:37
Alignment explanation
Indices: 1609550--1609657 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
1609540 TTGTGGATCC
*
1609550 TATTTTTAGGAGTTTGAATCGTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
*
1609587 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCC
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
*
1609624 TATTTTTAGGAGTTTGAATCCTATTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
1609658 ACGTTTGTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
Found at i:1610025 original size:22 final size:22
Alignment explanation
Indices: 1610000--1610050 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1609990 TTATTTATTT
*
1610000 TTTTAAATA-AAAATATTTTATA
1 TTTTAAATATAAAAT-TTTTAAA
1610022 TTTTAAATATAAAATTTTTAAA
1 TTTTAAATATAAAATTTTTAAA
*
1610044 TATTAAA
1 TTTTAAA
1610051 AATCAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTAAATATAAAATTTTTAAA
Found at i:1610042 original size:15 final size:16
Alignment explanation
Indices: 1610022--1610051 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1610012 ATATTTTATA
1610022 TTTTAAATA-TAAAAT
1 TTTTAAATATTAAAAT
1610037 TTTTAAATATTAAAA
1 TTTTAAATATTAAAA
1610052 ATCAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTAAATATTAAAAT
Found at i:1610058 original size:22 final size:23
Alignment explanation
Indices: 1610004--1610060 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
1609994 TTATTTTTTT
* *
1610004 AAATAAAAATATTTTATATTTTAA
1 AAAT-AAAATATTTTAAATATTAA
*
1610028 ATATAAAAT-TTTTAAATATTAA
1 AAATAAAATATTTTAAATATTAA
*
1610050 AAATCAAATAT
1 AAATAAAATAT
1610061 AACAATACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 18 0.67
23 6 0.22
24 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATAAAATATTTTAAATATTAA
Found at i:1614259 original size:18 final size:20
Alignment explanation
Indices: 1614233--1614270 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
1614223 AAATTAATCG
*
1614233 ATTATAATC-TTAAA-ATTT
1 ATTAAAATCATTAAACATTT
1614251 ATTAAAATCATTAAACATTT
1 ATTAAAATCATTAAACATTT
1614271 TTTATTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAAATCATTAAACATTT
Found at i:1615584 original size:20 final size:20
Alignment explanation
Indices: 1615561--1615632 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
1615551 TATACATATA
1615561 TATATATATATTAAAAATAG
1 TATATATATATTAAAAATAG
*
1615581 TATATAGT-T-TTGAAAATA-
1 TATATA-TATATTAAAAATAG
* *
1615599 TAT-TATAGTTTTTGAAAATAG
1 TATATATA--TATTAAAAATAG
*
1615620 TATAAATATATTA
1 TATATATATATTA
1615633 TATAGTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
16 1 0.02
17 2 0.05
18 3 0.07
19 9 0.22
20 19 0.46
21 4 0.10
22 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
TATATATATATTAAAAATAG
Found at i:1615598 original size:19 final size:20
Alignment explanation
Indices: 1615574--1615623 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
1615564 ATATATATTA
1615574 AAAATAGTATATAG-TTTTG
1 AAAATAGTATATAGTTTTTG
1615593 AAAATA-TATTATAGTTTTTG
1 AAAATAGTA-TATAGTTTTTG
1615613 AAAATAGTATA
1 AAAATAGTATA
1615624 AATATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.07
19 11 0.39
20 13 0.46
21 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (20 bp):
AAAATAGTATATAGTTTTTG
Found at i:1615640 original size:31 final size:31
Alignment explanation
Indices: 1615594--1615672 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
1615584 ATAGTTTTGA
1615594 AAATATA-T-TATAGTTTTTGAAAATAGTAT
1 AAATATATTATATAGTTTTTGAAAATAGTAT
1615623 AAATATATTATATAGTTTTTGAAAATAGTAT
1 AAATATATTATATAGTTTTTGAAAATAGTAT
*
1615654 AAATATATTATATAATTTT
1 AAATATATTATATAGTTTT
1615673 AAAAATAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 7 0.15
30 1 0.02
31 39 0.83
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.47
Consensus pattern (31 bp):
AAATATATTATATAGTTTTTGAAAATAGTAT
Found at i:1615676 original size:29 final size:29
Alignment explanation
Indices: 1615594--1615684 Score: 121
Period size: 31 Copynumber: 3.0 Consensus size: 29
1615584 ATAGTTTTGA
1615594 AAATATATTATAGT-TTTTGAAAATAGTAT
1 AAATATATTATA-TATTTTGAAAATAGTAT
1615623 AAATATATTATATAGTTTTTGAAAATAGTAT
1 AAATATATTATATA--TTTTGAAAATAGTAT
* *
1615654 AAATATATTATATAATTTTAAAAATAATAT
1 AAATATATTATAT-ATTTTGAAAATAGTAT
1615684 A
1 A
1615685 TAGTTTTAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
28 1 0.02
29 12 0.21
30 14 0.25
31 28 0.50
32 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (29 bp):
AAATATATTATATATTTTGAAAATAGTAT
Found at i:1615684 original size:19 final size:19
Alignment explanation
Indices: 1615662--1615698 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1615652 ATAAATATAT
1615662 TATATAATTTTAAAAATAA
1 TATATAATTTTAAAAATAA
* *
1615681 TATATAGTTTTAGAAATA
1 TATATAATTTTAAAAATA
1615699 GTACAGAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
TATATAATTTTAAAAATAA
Found at i:1616719 original size:18 final size:19
Alignment explanation
Indices: 1616679--1616719 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
1616669 CTCTGACATG
* *
1616679 CAAAGCAAAAAAATGAAGA
1 CAAAACAAAAAAAAGAAGA
1616698 -AAAACAAAAAAAAGAA-A
1 CAAAACAAAAAAAAGAAGA
1616715 CAAAA
1 CAAAA
1616720 AGGAAAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.78, C:0.10, G:0.10, T:0.02
Consensus pattern (19 bp):
CAAAACAAAAAAAAGAAGA
Found at i:1617418 original size:75 final size:75
Alignment explanation
Indices: 1617255--1617445 Score: 265
Period size: 75 Copynumber: 2.5 Consensus size: 75
1617245 CAATTCAAAG
* * * *
1617255 CCAAAAATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTG
1 CCAAGAATTCCAGAATGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTA
**
1617320 AATGGTTTGGCT
64 AACAGTTTGGCT
*
1617332 CCAAGATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAA
1 CCAAGAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAA
* *
1617397 CAGTTTTGTT
66 CAGTTTGGCT
* *
1617407 CCGAGAATTCCAGTATGCTCGGAGGGAACCGATTCCCCC
1 CCAAGAATTCCAGAATGCTCGGAGGGAACCGATTCCCCC
1617446 TTTGTACAAC
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 72 0.71
77 30 0.29
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (75 bp):
CCAAGAATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAA
CAGTTTGGCT
Found at i:1623197 original size:21 final size:21
Alignment explanation
Indices: 1623171--1623253 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
1623161 TTTTGGTGCA
* *
1623171 GAGGGAATCGATCCCCCCCCT
1 GAGGGAACCGATCCCCCCACT
* **
1623192 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCACT
*
1623213 GAAGGGGAACCGATTCCCCCCACA
1 G-A-GGGAACCGA-TCCCCCCACT
* *
1623237 G-GGGAATCGATACCCCC
1 GAGGGAACCGATCCCCCC
1623254 TTGGGGTTCT
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 6 0.12
21 26 0.53
22 1 0.02
23 9 0.18
24 7 0.14
ACGTcount: A:0.23, C:0.37, G:0.25, T:0.14
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCACT
Found at i:1625081 original size:24 final size:24
Alignment explanation
Indices: 1625054--1625099 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
1625044 GCGTGCAAAC
1625054 AATGAAGCAACCAATGCTCGTATT
1 AATGAAGCAACCAATGCTCGTATT
1625078 AATGAAGCAACCAATGCTCGTA
1 AATGAAGCAACCAATGCTCGTA
1625100 ACTTGACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (24 bp):
AATGAAGCAACCAATGCTCGTATT
Found at i:1626316 original size:9 final size:8
Alignment explanation
Indices: 1626294--1626344 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
1626284 TGTTTCAACA
1626294 TTTTGGAT
1 TTTTGGAT
1626302 ATTTTGGAT
1 -TTTTGGAT
1626311 TGTTT-GAT
1 T-TTTGGAT
1626319 TTTGTGGAT
1 TTT-TGGAT
*
1626328 TGTTGGA-
1 TTTTGGAT
1626335 TTTTGGAT
1 TTTTGGAT
1626343 TT
1 TT
1626345 ATGAATAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 8 0.22
8 12 0.33
9 16 0.44
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (8 bp):
TTTTGGAT
Found at i:1626328 original size:17 final size:17
Alignment explanation
Indices: 1626296--1626339 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1626286 TTTCAACATT
1626296 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
1626313 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
1626330 TTGGATTTTG
1 TTGGATTTTG
1626340 GATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Found at i:1626597 original size:15 final size:15
Alignment explanation
Indices: 1626577--1626607 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1626567 GGGAGAAGAA
1626577 TAAGTGTTAAATGTT
1 TAAGTGTTAAATGTT
1626592 TAAGTGTTAAATGTT
1 TAAGTGTTAAATGTT
1626607 T
1 T
1626608 TACTTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (15 bp):
TAAGTGTTAAATGTT
Found at i:1627124 original size:74 final size:75
Alignment explanation
Indices: 1626942--1627147 Score: 265
Period size: 75 Copynumber: 2.7 Consensus size: 75
1626932 CAAAGCCAAA
* * **
1626942 AATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATT-CCCCCTGAATGG
1 AATTCCAGA-TGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
1627006 TTTGGCTCCGAG
64 TTTGGCTCCGAG
*
1627018 ATTTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAG-ATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
* *
1627082 TTTGTTCCGAG
65 TTGGCTCCGAG
* * *
1627093 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAG-ATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
1627148 TTTGTACAAC
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
74 21 0.18
75 62 0.54
76 31 0.27
77 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (75 bp):
AATTCCAGATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:1629469 original size:23 final size:23
Alignment explanation
Indices: 1629443--1629490 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
1629433 GTTTAGTTTG
1629443 AAAAATTCAATTTCTTAATAAAA
1 AAAAATTCAATTTCTTAATAAAA
*
1629466 AAAAATTCAATTTCTTAATGAAA
1 AAAAATTCAATTTCTTAATAAAA
1629489 AA
1 AA
1629491 GGGGGAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAATTCAATTTCTTAATAAAA
Found at i:1629747 original size:31 final size:31
Alignment explanation
Indices: 1629650--1629740 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
1629640 CAATTTAAGG
*
1629650 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATAGTTTTTGGACTTGAATTGAATTTA
1629681 CAAAATAGTTTTTGGACTTGAATTGAATTTA
1 CAAAATAGTTTTTGGACTTGAATTGAATTTA
1629712 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATAGTTTTTGGACTTGAATTGAATTTA
1629741 TTCAAAATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 11 0.19
30 12 0.20
31 36 0.61
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (31 bp):
CAAAATAGTTTTTGGACTTGAATTGAATTTA
Found at i:1629913 original size:21 final size:21
Alignment explanation
Indices: 1629887--1629928 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1629877 ATTTGAATAT
*
1629887 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1629908 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1629929 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1629990 original size:21 final size:21
Alignment explanation
Indices: 1629957--1629996 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1629947 TTTGAGTAGA
*
1629957 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
1629979 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
1629997 AGATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:1630242 original size:34 final size:34
Alignment explanation
Indices: 1630203--1630306 Score: 158
Period size: 34 Copynumber: 3.1 Consensus size: 34
1630193 TTTTGTAAAG
*
1630203 GGGAAAGGTTATAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1630237 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
* * *
1630271 GGGAAAGGTTCTAGTTTAACCCG-G-AAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1630303 GGGA
1 GGGA
1630307 GTTGTAAGGT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
32 11 0.17
33 1 0.02
34 54 0.82
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (34 bp):
GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
Found at i:1639284 original size:30 final size:30
Alignment explanation
Indices: 1639218--1639306 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 30
1639208 TAAATTTTAG
1639218 TTTTCATCCCTCTATTATGCTTAC-AA-TT
1 TTTTCATCCCTCTATTATGCTTACAAATTT
1639246 TTTT-ATCCCTCTATTATGCTTACAAATTT
1 TTTTCATCCCTCTATTATGCTTACAAATTT
*
1639275 TTTTCATCCCTCTATTACGCTT--AAATTT
1 TTTTCATCCCTCTATTATGCTTACAAATTT
1639303 TTTT
1 TTTT
1639307 AATAGTCTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
27 19 0.33
28 16 0.28
29 6 0.11
30 16 0.28
ACGTcount: A:0.21, C:0.22, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTTCATCCCTCTATTATGCTTACAAATTT
Found at i:1641321 original size:25 final size:25
Alignment explanation
Indices: 1641289--1641346 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
1641279 TTTTTGTCCG
*
1641289 TTTT-TTAAAAAAAATATTTTTTAT
1 TTTTATTAAAAAAAATATTATTTAT
* **
1641313 TTTTATTAATATTAATATTATTTAT
1 TTTTATTAAAAAAAATATTATTTAT
1641338 TTTTATTAA
1 TTTTATTAA
1641347 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTATTAAAAAAAATATTATTTAT
Found at i:1641325 original size:19 final size:20
Alignment explanation
Indices: 1641301--1641361 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 20
1641291 TTTTAAAAAA
1641301 AATA-TTTTTTATTTTTATT
1 AATATTTTTTTATTTTTATT
1641320 AATATTAATATTATTTATTTTTATT
1 AATA-T--T-TT-TTTATTTTTATT
1641345 AATATTTTTTTATTTTT
1 AATATTTTTTTATTTTT
1641362 TATTTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
19 4 0.11
20 9 0.25
21 2 0.06
22 1 0.03
23 1 0.03
24 3 0.08
25 16 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
AATATTTTTTTATTTTTATT
Found at i:1641347 original size:25 final size:25
Alignment explanation
Indices: 1641301--1641350 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1641291 TTTTAAAAAA
*
1641301 AATATTTTTTATTTTTATTAATATT
1 AATATTATTTATTTTTATTAATATT
1641326 AATATTATTTATTTTTATTAATATT
1 AATATTATTTATTTTTATTAATATT
1641351 TTTTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
AATATTATTTATTTTTATTAATATT
Found at i:1642560 original size:3 final size:3
Alignment explanation
Indices: 1642549--1642584 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1642539 ATGGTTTTTT
*
1642549 TTA TATA TTA TTG TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1642585 TTACTCAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1642651 original size:17 final size:17
Alignment explanation
Indices: 1642604--1642644 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
1642594 TTTATTTATC
1642604 TTCATTTATCTATTCTA
1 TTCATTTATCTATTCTA
*
1642621 CTCATTTATCTATTCTA
1 TTCATTTATCTATTCTA
1642638 TTCATTT
1 TTCATTT
1642645 TATTATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (17 bp):
TTCATTTATCTATTCTA
Found at i:1646900 original size:84 final size:83
Alignment explanation
Indices: 1646752--1647932 Score: 1097
Period size: 84 Copynumber: 14.3 Consensus size: 83
1646742 CTATTTACAA
* * * * * *
1646752 CATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAGACCTTCGAGTTCGACTACGCTAAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTC
1646817 CAAGGCACATCATTTGTAG
65 CAAGGCACATCATTTGTAG
* * *
1646836 CATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTTGAGTTCGACAACGCTCAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTC
* *
1646901 CAAGGCACATCATTTGCAA
65 CAAGGCACATCATTTGTAG
* * * * * * * *
1646920 AATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAATGTCTTTC-AGTTCGAATACGCTCAGCT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAA-GACCTTCGAGTTCGACTACGCTCAGCT
* ** *
1646984 CCATGGCACATCATTTACAA
64 CCAAGGCACATCATTTGTAG
** *
1647004 CATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAGACCTTCGAGTTCGACTACAG-TCAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC-GCTCAGCTC
* *
1647068 TAAGGCACATCATTTGCAG
65 CAAGGCACATCATTTGTAG
* * * * * * * *
1647087 CATAGCTTAAGTCGAGAAGGGCTATCT---ACCAAAGACCTTTGAGTTCGACTACACTCAGCT-C
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
1647148 AATGGCACATCATTTGTAG
66 AA-GGCACATCATTTGTAG
* * * * * * * * * * *
1647167 TATAACTTAAGTCGAGAAGGGCTATCTGCTAACCAAAGATCTTCGAGTTTGATTACACTCAGTTT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAG-CT
* *
1647232 CGAGGGCACATCATTTGTAG
64 CCAAGGCACATCATTTGTAG
* * * * *
1647252 CATAACTCAAGGCTAGAAGGGTTATCTTCCAACAAAGACCTTCGAGTTCGACTACGTTTAGGTCG
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* *
1647317 AAGGCATATAATTTGTAG
66 AAGGCACATCATTTGTAG
* * * * * * * ***
1647335 CATAGCTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTTGATTATATTCAGCTT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGC-T
* * *
1647400 CGAGGGCACAAT-ATTTGCAG
64 CCAAGGCAC-ATCATTTGTAG
*
1647420 CATAACTCAAGGCTAGAAGAGTTATCTGCCAACAAAGACCTTCGAGTTCGACTA----C-GCTCC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
1647480 AAGGCACATCATTTGTAG
66 AAGGCACATCATTTGTAG
* * * ** * * * * *
1647498 CATAGCTTAA-GTTGAGAAGGACTATCT---ACCAAAGACCCTCGAGTTCGATTACACTCAGCTT
1 CATAACTCAAGGCT-AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTC
** *
1647559 CAAGGGCACATCATTTACAA
65 CAA-GGCACATCATTTGTAG
* * * *
1647579 CATAACTCAAGGGTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
1647644 AAGGCATATCATTTGTAG
66 AAGGCACATCATTTGTAG
* * * * *
1647662 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCTAGTTCGACTCCGCTCAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1647727 CAAGGCACATCATTTGTAG
65 CAAGGCACATCATTTGTAG
* * * * * *
1647746 CATAGA-TTAAGTCGAGAAGGGTTATCT---ACCAAAGACCTTCGAGTTCGATTACACTCAGCTT
1 CATA-ACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-T
* *
1647807 CGAGGGCACATCATTTGTAG
64 CCAAGGCACATCATTTGTAG
* * *
1647827 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGATCG
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* ** *
1647892 AAGACACATCATTTACAA
66 AAGGCACATCATTTGTAG
*
1647910 CATAACTCAAGGCAAGAAGGGTT
1 CATAACTCAAGGCTAGAAGGGTT
1647933 GTATGTCAAT
Statistics
Matches: 906, Mismatches: 158, Indels: 67
0.80 0.14 0.06
Matches are distributed among these distances:
75 21 0.02
77 4 0.00
78 33 0.04
79 5 0.01
80 104 0.11
81 74 0.08
82 7 0.01
83 178 0.20
84 389 0.43
85 88 0.10
86 3 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (83 bp):
CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
AAGGCACATCATTTGTAG
Found at i:1647598 original size:327 final size:324
Alignment explanation
Indices: 1646743--1647932 Score: 1094
Period size: 331 Copynumber: 3.6 Consensus size: 324
1646733 CAATTTTTTC
* * *
1646743 TATTTACAACATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAGACCTTCGAGTTCGACTAC
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGCTA-TCTCCAAC-AAAGACCTTCGAGTTCGACTA-
* * *
1646808 GCTAAGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCT-AGAAGGGTTATCTACCAACAAA
63 -C---GCTCCAAGGCACATCATTTGTAGCATAACTTAA-GTTGAGAAGGGCTATCTA-C--C-AA
* ** * * * * *
1646872 AGACCTTTGAGTTCGACAACGCTCAGCTCCAA-GGCACATCATTTGCAAAATAGCTCAAGGCAAG
119 AGACCTTCGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGCAACATAACTCAAGGCTAG
* * * * * *
1646936 AAGGGCTAT-TTGCCAACAAAATGTCTTTC-AGTTCGAATACGCTCAGCTCCATGGCACATCATT
184 AAGGGTTATCTT-CCAAC-AAA-GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
** * * * * * *
1646999 TACAACATAACTCAAGGCTAGAAGGGTTATCT-ATCACCAAAGACCTTCGAGTTCGACTACAGTC
246 TGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTACAGTC
*
1647063 AGCTCTAAGGCACA
311 AGCTCGAAGGCACA
* * * * * *
1647077 TCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT--ACCAAAGACCTTTGAGTTCGACTACA
1 T-ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTCCAACAAAGACCTTCGAGTTCGACTACG
* *
1647140 CTCAGCTCAATGGCACATCATTTGTAGTATAACTTAAGTCGAGAAGGGCTATCTGCTAACCAAAG
65 CT---C-CAA-GGCACATCATTTGTAGCATAACTTAAGTTGAGAAGGGCTA--T-CT-ACCAAAG
* * * * * *
1647205 ATCTTCGAGTTTGATTACACTCAGTTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCTAGAA
121 ACCTTCGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGCAACATAACTCAAGGCTAGAA
* * * * *
1647270 GGGTTATCTTCCAACAAAGACCTTCGAGTTCGACTACGTTTAGGTCGAAGGCATATAATTTGTAG
186 GGGTTATCTTCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAG
* * * * *
1647335 CATAGCTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTTGATTATATTCAGCTT
251 CATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTACAGTCAGC-T
*
1647400 CGAGGGCACAA
315 CGAAGGCAC-A
* * * *
1647411 TATTTGCAGCATAACTCAAGGCTAGAAGAGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
1 TATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCT-CCAACAAAGACCTTCGAGTTCGACTACG
* * *
1647476 CTCCAAGGCACATCATTTGTAGCATAGCTTAAGTTGAGAAGGACTATCTACCAAAGACCCTCGAG
65 CTCCAAGGCACATCATTTGTAGCATAACTTAAGTTGAGAAGGGCTATCTACCAAAGACCTTCGAG
* *
1647541 TTCGATTACACTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGGTAGAAGGGTTATCT
130 TTCGATTACACTCAGCTTCAAGGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCT
* *
1647606 GT-CACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCATAACTT
195 -TCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCATAACTT
* * * *
1647670 AAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCTAGTTCGACT-CCGCTCAGCTCCAAGGCA
259 AAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTACAG-TCAGCTCGAAGGCA
1647734 CA
323 CA
* * * * * * * *
1647736 TCATTTGTAGCATAGATTAAGTCGAGAAGGGTTATCT--ACCAAAGACCTTCGAGTTCGATTACA
1 T-ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTCCAACAAAGACCTTCGAGTTCGACT--A
* * * * * *
1647799 CTCAGCTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCT-AGAAGGGTTATCTGCCAACAAA
63 --C-GC-TCCAAGGCACATCATTTGTAGCATAACTTAA-GTTGAGAAGGGCTATCT---ACCAAA
* * * * * * *
1647863 GACCTTTGAGTTCGACTACGCTCAG-ATCGAA-GACACATCATTTACAACATAACTCAAGGCAAG
120 GACCTTCGAGTTCGATTACACTCAGCTTC-AAGGGCACATCATTTGCAACATAACTCAAGGCTAG
1647926 AAGGGTT
184 AAGGGTT
1647933 GTATGTCAAT
Statistics
Matches: 704, Mismatches: 118, Indels: 71
0.79 0.13 0.08
Matches are distributed among these distances:
323 21 0.03
325 3 0.00
326 38 0.05
327 174 0.25
328 5 0.01
329 41 0.06
330 11 0.02
331 206 0.29
332 103 0.15
333 41 0.06
334 8 0.01
335 28 0.04
336 25 0.04
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (324 bp):
TATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTCCAACAAAGACCTTCGAGTTCGACTACGC
TCCAAGGCACATCATTTGTAGCATAACTTAAGTTGAGAAGGGCTATCTACCAAAGACCTTCGAGT
TCGATTACACTCAGCTTCAAGGGCACATCATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTT
CCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCATAACTTAA
GTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTACAGTCAGCTCGAAGGCACA
Found at i:1647931 original size:248 final size:249
Alignment explanation
Indices: 1646752--1647932 Score: 1174
Period size: 248 Copynumber: 4.8 Consensus size: 249
1646742 CTATTTACAA
* * * * * * *
1646752 CATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAGACCTTCGAGTTCGACTACGCTAAGCTC
1 CATAACTCAAGGCGAGAAGGGTTATCTT-C-ACCAAAGACCTTCGAGTTCGACTACACTCAGCTC
* *
1646817 CAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTTGA
64 GAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTTGA
* ** * * *
1646882 GTTCGACAACGCTCAGCTCCAAGGCACATCATTTGCAAAATAGCTCAAGGCAAGAAGGGCTATTT
128 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCT
* * * * * ** *
1646947 GCCAACAAAATGTCTTTC-AGTTCGAATACGCTCAGCTCCATGGCACATCATTTACAA
193 GCCAACCAAA-GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAG
* * *
1647004 CATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAGACCTTCGAGTTCGACTACAGTCAGCTCT
1 CATAACTCAAGGCGAGAAGGGTTATCT-TCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCG
* * * * * * *
1647069 AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT---ACCAAAGACCTTTGAGT
65 AAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGT
* * * * * * *
1647131 TCGACTACACTCAGCT-CAATGGCACATCATTTGTAGTATAACTTAAGTCGAGAAGGGCTATCTG
130 TCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTG
* * * * * * * *
1647195 CTAACCAAAGATCTTCGAGTTTGATTACACTCAGTTTCGAGGGCACATCATTTGTAG
194 CCAACCAAAGACCTTCGAGTTCGACTACGCTCAG-CTCCAAGGCACATCATTTGTAG
* * ** * *
1647252 CATAACTCAAGGCTAGAAGGGTTATCTTCCAACAAAGACCTTCGAGTTCGACTACGTTTAGGTCG
1 CATAACTCAAGGCGAGAAGGGTTATCTT-CACCAAAGACCTTCGAGTTCGACTACACTCAGCTCG
* * * * * * * *
1647317 AAGGCATATAATTTGTAGCATAGCTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAG
65 AAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTTGAG
* * *** * * * *
1647382 TTTGATTATATTCAGCTTCGAGGGCACAAT-ATTTGCAGCATAACTCAAGGCTAGAAGAGTTATC
129 TTCGACTACGCTCAGC-TCCAAGGCAC-ATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATC
1647446 TGCCAA-CAAAGACCTTCGAGTTCGACTA----C-GCTCCAAGGCACATCATTTGTAG
192 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAG
* * ** ** * *
1647498 CATAGCTTAAGTTGAGAAGGACTATC-T-ACCAAAGACCCTCGAGTTCGATTACACTCAGCTTC-
1 CATAACTCAAGGCGAGAAGGGTTATCTTCACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCG
** * * * * *
1647560 AAGGGCACATCATTTACAACATAACTCAAGGGTAGAAGGGTTATCTGTCACCAAAGACCTTCGAG
65 AA-GGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAG
* * * * * *
1647625 TTTGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTG
129 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTG
* *
1647690 CCAACCAAAGACCTTCTAGTTCGACTCCGCTCAGCTCCAAGGCACATCATTTGTAG
194 CCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAG
* * *
1647746 CATAGA-TTAAGTCGAGAAGGGTTATC-T-ACCAAAGACCTTCGAGTTCGATTACACTCAGCTTC
1 CATA-ACTCAAGGCGAGAAGGGTTATCTTCACCAAAGACCTTCGAGTTCGACTACACTCAGC-TC
*
1647808 GAGGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAG
64 GAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAG
* * * * *
1647873 TTCGACTACGCTCAGATCGAAGACACATCATTTACAACATAACTCAAGGCAAGAAGGGTT
129 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTT
1647933 GTATGTCAAT
Statistics
Matches: 769, Mismatches: 137, Indels: 50
0.80 0.14 0.05
Matches are distributed among these distances:
241 2 0.00
242 42 0.05
243 73 0.09
244 37 0.05
245 1 0.00
246 45 0.06
247 88 0.11
248 300 0.39
249 1 0.00
251 70 0.09
252 68 0.09
253 39 0.05
254 3 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (249 bp):
CATAACTCAAGGCGAGAAGGGTTATCTTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCGA
AGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTT
CGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCC
AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAG
Found at i:1652293 original size:26 final size:25
Alignment explanation
Indices: 1652264--1652312 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
1652254 AGTGATAACA
*
1652264 GTAATTCATATAATAATAATAAAATG
1 GTAACTCATATAATAA-AATAAAATG
* *
1652290 GTAACTGATATGATAAAATAAAA
1 GTAACTCATATAATAAAATAAAA
1652313 CTAGCCTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (25 bp):
GTAACTCATATAATAAAATAAAATG
Found at i:1653339 original size:148 final size:149
Alignment explanation
Indices: 1653073--1653349 Score: 448
Period size: 148 Copynumber: 1.9 Consensus size: 149
1653063 CTAGAGTGTT
* *
1653073 ACACGTTTTGGTATAATTCAGAAGACTTTGTGCTCTTAACTCATTTAGAACAATGATATTATTTG
1 ACACGTTTTGGTATAATTCAGAAAACTTTGTGCTCTTAACTCATTTAGAACAATGATATTATTGG
* * *
1653138 GCGCAACCATATTTATATACCAAATCATAAAAATTTGTGCTGTTAACTTATTTTTTTATCGTGGT
66 GCACAACCATATTTATATACCAAATCATAAAAATTTGTGCTCTTAACTTATTTTGTTATCGTGGT
1653203 CTAGGGTGTTATACGTTCA
131 CTAGGGTGTTATACGTTCA
*
1653222 ACACGTTTTGGTATAATTGAGAAAACTTTGTGCTCTTAACTCATTTAGAAC-ATGATATTATTGG
1 ACACGTTTTGGTATAATTCAGAAAACTTTGTGCTCTTAACTCATTTAGAACAATGATATTATTGG
* ** * *
1653286 GTACAACTGTATTTATATACCAAATCATAAAACTTTTTGCTCTTAACTTATTTTGTTATCGTGG
66 GCACAACCATATTTATATACCAAATCATAAAAATTTGTGCTCTTAACTTATTTTGTTATCGTGG
1653350 GGAACTCCGA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
148 68 0.58
149 49 0.42
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (149 bp):
ACACGTTTTGGTATAATTCAGAAAACTTTGTGCTCTTAACTCATTTAGAACAATGATATTATTGG
GCACAACCATATTTATATACCAAATCATAAAAATTTGTGCTCTTAACTTATTTTGTTATCGTGGT
CTAGGGTGTTATACGTTCA
Found at i:1653860 original size:263 final size:257
Alignment explanation
Indices: 1653310--1654235 Score: 1125
Period size: 263 Copynumber: 3.6 Consensus size: 257
1653300 ATATACCAAA
** * * * *
1653310 TCATAAAACTTTTTGCTCTTAACTTATTTTGTTATCGTGGGGAACTCCGAGGCTCCATCTGCTAA
1 TCATAAAACTTTAAGCTCTTAACTTATTTTATTATAGTGGGAAACTCCAAGGCTCCATC-GCTAA
* * * * *
1653375 AACTTTCATAATATTTTAGGCTCAATCACTTTTATTGTGAAAAATAATAAGATCACAAATTGCAA
65 AACTCTCATAATATTTTAGGCGCAATCACTTTTATTAT-AAAAATAATAAGATTACAGATTGCAA
*
1653440 CATGCTTTCTTAGGGGGGTCATGATATTTTGGGTGCAA-CATATTTTATTAATACAAAATTTAAC
129 CATGCTTTCTTA--GGGGCCATGA-ATTTTGGGTGCAATC-TA-TTTATTAATACAAAATTTAAC
* * * * *
1653504 ATTACAAGTCGCATCTTGTTTCATTTAGAACCATTATGTTATTATGCA-CTATCGTATCTATTAT
189 ATTACAAGTCGCAACTTATTTCATTTAGAACCATTATGTTATTGTG-AGCAACCGTATCTA-TAT
1653568 TCATAT
252 TCATAT
* * * * *
1653574 TCATAAGATTTTAAGCTCTTAACTTATTTTATTATAGTGGCAAACTTCAAGGCTCTATCAGCTAA
1 TCATAAAACTTTAAGCTCTTAACTTATTTTATTATAGTGGGAAACTCCAAGGCTCCATC-GCTAA
* * * *
1653639 AATTTTCTTAATATTTTAGGCGCAATCACTTTTATTATAAAAATTAATAAGATTATAGATTGCAA
65 AACTCTCATAATATTTTAGGCGCAATCACTTTTATTATAAAAA-TAATAAGATTACAGATTGCAA
* * * * *
1653704 TATGCTTTCTTAGAGGGCCATAACATTCTGGGTGCAATCTATTCTGTTAATACAAAATTTAATAT
129 CATGCTTTCTTAG-GGGCCATGA-ATTTTGGGTGCAATCTATT-TATTAATACAAAATTTAACAT
* * *
1653769 TACAAGTCGCAACTTATTACATTTAGAACCATTATGTTATTGTGAGCAACCATATCTAGTATTTA
191 TACAAGTCGCAACTTATTTCATTTAGAACCATTATGTTATTGTGAGCAACCGTATCTA-TATTCA
1653834 TAT
255 TAT
* *
1653837 TCATAAAACTTTAAGCCCTTAACTTATTTTATTATCA-TGGGGAACTCCAAGGCTCCATCGACT-
1 TCATAAAACTTTAAGCTCTTAACTTATTTTATTAT-AGTGGGAAACTCCAAGGCTCCATCG-CTA
1653900 AAACTCTCATAATATTTTAGGCGCAATCACTTTTATTATAAAAATAATAAGATTACAGATTGCAA
64 AAACTCTCATAATATTTTAGGCGCAATCACTTTTATTATAAAAATAATAAGATTACAGATTGCAA
* * *
1653965 CATGCTTT-ATAGGGG-CATGAATTTTAGGCGCAATCTATTTATTAATAC-AAATTTAACATTAC
129 CATGCTTTCTTAGGGGCCATGAATTTTGGGTGCAATCTATTTATTAATACAAAATTTAACATTAC
* * * * *
1654027 AAGTCACAA-TTATTTCATTTAGAACTATGATATTATTG-GATGCAACCGTATCTATATGCCA-A
194 AAGTCGCAACTTATTTCATTTAGAACCATTATGTTATTGTGA-GCAACCGTATCTATAT-TCATA
*
1654089 A
257 T
** * * *
1654090 TCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGAGGGAAACTCCAAGGCTCCATCGGCTTA
1 TCATAAAACTTTAAGCTCTTAACTTATTTTATTATAGTGGGAAACTCCAAGGCTCCATC-GCTAA
* *
1654155 AACTCTCATAATATTTGAGGTGCAATCACTTTTATTATAAAAATAATAAGATTACAGATTGCAAC
65 AACTCTCATAATATTTTAGGCGCAATCACTTTTATTATAAAAATAATAAGATTACAGATTGCAAC
*
1654220 ATGATTTCTTAGGGGC
130 ATGCTTTCTTAGGGGC
1654236 ACTTTGTATG
Statistics
Matches: 575, Mismatches: 73, Indels: 36
0.84 0.11 0.05
Matches are distributed among these distances:
253 60 0.10
254 109 0.19
255 27 0.05
256 8 0.01
257 16 0.03
258 4 0.01
259 3 0.01
260 3 0.01
261 27 0.05
262 46 0.08
263 154 0.27
264 118 0.21
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (257 bp):
TCATAAAACTTTAAGCTCTTAACTTATTTTATTATAGTGGGAAACTCCAAGGCTCCATCGCTAAA
ACTCTCATAATATTTTAGGCGCAATCACTTTTATTATAAAAATAATAAGATTACAGATTGCAACA
TGCTTTCTTAGGGGCCATGAATTTTGGGTGCAATCTATTTATTAATACAAAATTTAACATTACAA
GTCGCAACTTATTTCATTTAGAACCATTATGTTATTGTGAGCAACCGTATCTATATTCATAT
Found at i:1669189 original size:6 final size:6
Alignment explanation
Indices: 1669175--1669276 Score: 78
Period size: 6 Copynumber: 17.0 Consensus size: 6
1669165 AAATGTTTGT
* * * * *
1669175 GTATGC GTATAC GTATAC ATATGC GTATGC GTATGC ATATAC GTATGC
1 GTATGC GTATGC GTATGC GTATGC GTATGC GTATGC GTATGC GTATGC
* * * * * * * * *
1669223 ATATAC ATATGT GTATAC ATATAC GTATGC GTATGT GTATAC GTATGC
1 GTATGC GTATGC GTATGC GTATGC GTATGC GTATGC GTATGC GTATGC
1669271 GTATGC
1 GTATGC
1669277 ATATATATAT
Statistics
Matches: 74, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (6 bp):
GTATGC
Found at i:1669199 original size:18 final size:18
Alignment explanation
Indices: 1669176--1669485 Score: 139
Period size: 18 Copynumber: 17.6 Consensus size: 18
1669166 AATGTTTGTG
* *
1669176 TATGCGTATACGTATACA
1 TATGCGTATGCATATACA
* *
1669194 TATGCGTATGCGTATGCA
1 TATGCGTATGCATATACA
*
1669212 TATACGTATGCATATACA
1 TATGCGTATGCATATACA
* * *
1669230 TATGTGTATACATATACG
1 TATGCGTATGCATATACA
** *
1669248 TATGCGTATGTGTATACG
1 TATGCGTATGCATATACA
*
1669266 TATGCGTATGCATATATA
1 TATGCGTATGCATATACA
* *
1669284 TAT--ATAT--ATATATA
1 TATGCGTATGCATATACA
* ** *
1669298 TAT--ATATATATATACG
1 TATGCGTATGCATATACA
* * **
1669314 TATGTGTATACATATGTA
1 TATGCGTATGCATATACA
* * *
1669332 TATGCATATGCGTATACG
1 TATGCGTATGCATATACA
* *
1669350 TATACGTATGCATATGCA
1 TATGCGTATGCATATACA
** * * *
1669368 TATATGTATACGTATGCA
1 TATGCGTATGCATATACA
*
1669386 TATACGTATGCATATACA
1 TATGCGTATGCATATACA
* **
1669404 TATGCATATATATATACA
1 TATGCGTATGCATATACA
* * **
1669422 TATGCATAT-TAGTATATG
1 TATGCGTATGCA-TATACA
* **
1669440 TATGTGTATGTGTATACA
1 TATGCGTATGCATATACA
* * *
1669458 TATGAGTATGCGTATACG
1 TATGCGTATGCATATACA
*
1669476 TATGCATATG
1 TATGCGTATG
1669486 TGTATGTGCA
Statistics
Matches: 226, Mismatches: 60, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
14 14 0.06
16 11 0.05
17 2 0.01
18 198 0.88
19 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TATGCGTATGCATATACA
Found at i:1669201 original size:12 final size:12
Alignment explanation
Indices: 1669186--1669418 Score: 91
Period size: 12 Copynumber: 19.9 Consensus size: 12
1669176 TATGCGTATA
1669186 CGTATACATATG
1 CGTATACATATG
* *
1669198 CGTATGCGTATG
1 CGTATACATATG
* *
1669210 CATATACGTATG
1 CGTATACATATG
*
1669222 CATATACATATG
1 CGTATACATATG
* *
1669234 TGTATACATATA
1 CGTATACATATG
* *
1669246 CGTATGCGTATG
1 CGTATACATATG
* *
1669258 TGTATACGTATG
1 CGTATACATATG
* *
1669270 CGTATGCATATA
1 CGTATACATATG
** * *
1669282 TATATATATATA
1 CGTATACATATG
** * *
1669294 TATATATATATA
1 CGTATACATATG
** *
1669306 TATATACGTATG
1 CGTATACATATG
*
1669318 TGTATACATATG
1 CGTATACATATG
** *
1669330 TATATGCATATG
1 CGTATACATATG
* *
1669342 CGTATACGTATA
1 CGTATACATATG
*
1669354 CGTATGCATATG
1 CGTATACATATG
1669366 C--AT--ATAT-
1 CGTATACATATG
*
1669373 -GTATACGTATG
1 CGTATACATATG
* *
1669384 CATATACGTATG
1 CGTATACATATG
*
1669396 CATATACATATG
1 CGTATACATATG
* *
1669408 CATATATATAT
1 CGTATACATAT
1669419 ACATATGCAT
Statistics
Matches: 174, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
8 6 0.03
10 5 0.03
12 163 0.94
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (12 bp):
CGTATACATATG
Found at i:1669202 original size:24 final size:24
Alignment explanation
Indices: 1669176--1669412 Score: 135
Period size: 24 Copynumber: 10.1 Consensus size: 24
1669166 AATGTTTGTG
*
1669176 TATGCGTATACGTATACATATGCG
1 TATGCGTATACGTATACATATGCA
* * *
1669200 TATGCGTATGCATATACGTATGCA
1 TATGCGTATACGTATACATATGCA
* * ** * *
1669224 TATACATATGTGTATACATATACG
1 TATGCGTATACGTATACATATGCA
** * *
1669248 TATGCGTATGTGTATACGTATGCG
1 TATGCGTATACGTATACATATGCA
* *
1669272 TATGCATATA--TATATATAT--A
1 TATGCGTATACGTATACATATGCA
* ** * * *
1669292 TAT--ATATATATATATATATACG
1 TATGCGTATACGTATACATATGCA
* * **
1669314 TATGTGTATACATATGTATATGCA
1 TATGCGTATACGTATACATATGCA
*
1669338 TATGCGTATACGTATACGTATGCA
1 TATGCGTATACGTATACATATGCA
* * *
1669362 TATGCATATATGTATACGTATGCA
1 TATGCGTATACGTATACATATGCA
* * *
1669386 TATACGTATGCATATACATATGCA
1 TATGCGTATACGTATACATATGCA
1669410 TAT
1 TAT
1669413 ATATATACAT
Statistics
Matches: 168, Mismatches: 39, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
18 5 0.03
20 12 0.07
22 10 0.06
24 141 0.84
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (24 bp):
TATGCGTATACGTATACATATGCA
Found at i:1669284 original size:2 final size:2
Alignment explanation
Indices: 1669277--1669311 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1669267 ATGCGTATGC
1669277 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 A
1669312 CGTATGTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1669340 original size:6 final size:6
Alignment explanation
Indices: 1669324--1669430 Score: 61
Period size: 6 Copynumber: 17.8 Consensus size: 6
1669314 TATGTGTATA
* * * * * * *
1669324 CATATG TATATG CATATG CGTATA CGTATA CGTATG CATATG CATATA
1 CATATG CATATG CATATG CATATG CATATG CATATG CATATG CATATG
** * * * * * * * *
1669372 TGTATA CGTATG CATATA CGTATG CATATA CATATG CATATA TATATA
1 CATATG CATATG CATATG CATATG CATATG CATATG CATATG CATATG
1669420 CATATG CATAT
1 CATATG CATAT
1669431 TAGTATATGT
Statistics
Matches: 79, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 79 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (6 bp):
CATATG
Found at i:1669423 original size:24 final size:24
Alignment explanation
Indices: 1669320--1669430 Score: 96
Period size: 24 Copynumber: 4.6 Consensus size: 24
1669310 TACGTATGTG
** * *
1669320 TATACATATGTATATGCATATGCG
1 TATACATATACATATGCATATACA
* * *
1669344 TATACGTATACGTATGCATATGCA
1 TATACATATACATATGCATATACA
** * *
1669368 TATATGTATACGTATGCATATACG
1 TATACATATACATATGCATATACA
* *
1669392 TATGCATATACATATGCATATATA
1 TATACATATACATATGCATATACA
*
1669416 TATACATATGCATAT
1 TATACATATACATAT
1669431 TAGTATATGT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (24 bp):
TATACATATACATATGCATATACA
Found at i:1669491 original size:6 final size:6
Alignment explanation
Indices: 1669482--1669562 Score: 63
Period size: 6 Copynumber: 13.5 Consensus size: 6
1669472 TACGTATGCA
* * * * * * * *
1669482 TATGTG TATGTG CATGTG CATATA CATGTG CATGTG CATGTG CATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
* * *
1669530 TATGTG TATGTG TATGTA TATATG TATATG TAT
1 TATGTG TATGTG TATGTG TATGTG TATGTG TAT
1669563 CTATATCGTC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.23, C:0.07, G:0.26, T:0.43
Consensus pattern (6 bp):
TATGTG
Found at i:1669498 original size:12 final size:12
Alignment explanation
Indices: 1669483--1669546 Score: 74
Period size: 12 Copynumber: 5.3 Consensus size: 12
1669473 ACGTATGCAT
*
1669483 ATGTGTATGTGC
1 ATGTGCATGTGC
* *
1669495 ATGTGCATATAC
1 ATGTGCATGTGC
1669507 ATGTGCATGTGC
1 ATGTGCATGTGC
*
1669519 ATGTGCATGTGT
1 ATGTGCATGTGC
* *
1669531 ATGTGTATGTGT
1 ATGTGCATGTGC
1669543 ATGT
1 ATGT
1669547 ATATATGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.20, C:0.09, G:0.30, T:0.41
Consensus pattern (12 bp):
ATGTGCATGTGC
Found at i:1669540 original size:18 final size:18
Alignment explanation
Indices: 1669483--1669546 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
1669473 ACGTATGCAT
*
1669483 ATGTGTATGTGCATGTGC
1 ATGTGCATGTGCATGTGC
* *
1669501 ATATACATGTGCATGTGC
1 ATGTGCATGTGCATGTGC
* *
1669519 ATGTGCATGTGTATGTGT
1 ATGTGCATGTGCATGTGC
*
1669537 ATGTGTATGT
1 ATGTGCATGT
1669547 ATATATGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.20, C:0.09, G:0.30, T:0.41
Consensus pattern (18 bp):
ATGTGCATGTGCATGTGC
Done.