Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 205 of 218
Found at i:60678865 original size:13 final size:13
Alignment explanation
Indices: 60678849--60678873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60678839 CTTCCATTTT
60678849 TTATTTTCATCTA
1 TTATTTTCATCTA
60678862 TTATTTTCATCT
1 TTATTTTCATCT
60678874 TGCTATTATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTTCATCTA
Found at i:60681904 original size:24 final size:24
Alignment explanation
Indices: 60681855--60681905 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
60681845 TTAATAAAAA
**
60681855 TAAAAATATTTAATATCTTTCCTT
1 TAAAAATATTTAATATCTTTAATT
60681879 TAAAATATATTTAATAT-TTTAATT
1 TAAAA-ATATTTAATATCTTTAATT
60681903 TAA
1 TAA
60681906 TACAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAAAATATTTAATATCTTTAATT
Found at i:60682749 original size:31 final size:31
Alignment explanation
Indices: 60682711--60682776 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 31
60682701 TTAATATGCT
60682711 ATTTGGTATCTTAA-TTTGACTTCAATGTTCA
1 ATTTGGTA-CTTAAGTTTGACTTCAATGTTCA
*
60682742 ATTTGGTACTTAAGTTTGACTTCAATTTTCA
1 ATTTGGTACTTAAGTTTGACTTCAATGTTCA
60682773 ATTT
1 ATTT
60682777 AGTGCCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (31 bp):
ATTTGGTACTTAAGTTTGACTTCAATGTTCA
Found at i:60684024 original size:39 final size:39
Alignment explanation
Indices: 60683943--60684027 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
60683933 TTAAGTCAAT
* ** * *
60683943 TGTAAATTTTAAATTTATTTGCATCAATATGGTTACACA
1 TGTAAATTTTAAATCTATTTGCATCAATATACTCACAAA
*
60683982 TGTAAATTTTAAATCTATTTGCATCAATGTACTGCA-AAA
1 TGTAAATTTTAAATCTATTTGCATCAATATACT-CACAAA
60684021 TGTAAAT
1 TGTAAAT
60684028 GAAAAGACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 38 0.97
40 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (39 bp):
TGTAAATTTTAAATCTATTTGCATCAATATACTCACAAA
Found at i:60688463 original size:17 final size:17
Alignment explanation
Indices: 60688441--60688473 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60688431 TATTTAATTC
60688441 TTTTAATAT-ATTATATA
1 TTTTAA-ATCATTATATA
60688458 TTTTAAATCATTATAT
1 TTTTAAATCATTATAT
60688474 GTATAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATCATTATATA
Found at i:60688624 original size:16 final size:16
Alignment explanation
Indices: 60688605--60688659 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
60688595 TATACATATC
60688605 TATACATATATATCTA
1 TATACATATATATCTA
* * *
60688621 TATACATTTTTTTCTA
1 TATACATATATATCTA
*
60688637 TATAGATATATATCTA
1 TATACATATATATCTA
60688653 TATACAT
1 TATACAT
60688660 TTTTTTCTTC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (16 bp):
TATACATATATATCTA
Found at i:60688651 original size:32 final size:32
Alignment explanation
Indices: 60688605--60688667 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
60688595 TATACATATC
60688605 TATACATATATATCTATATACATTTTTTTCTA
1 TATACATATATATCTATATACATTTTTTTCTA
*
60688637 TATAGATATATATCTATATACATTTTTTTCT
1 TATACATATATATCTATATACATTTTTTTCT
60688668 TCCTGTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (32 bp):
TATACATATATATCTATATACATTTTTTTCTA
Found at i:60691049 original size:84 final size:84
Alignment explanation
Indices: 60690890--60691069 Score: 222
Period size: 84 Copynumber: 2.1 Consensus size: 84
60690880 ATTCCTCTTC
* ** * * *
60690890 AAAAATGAAAAATTTTCAATTTAGTCTTCTCATAAATAGAGAAATTATAAATTAATATATAGTAA
1 AAAAATGAAAAATTTTCAATTCAAACCTCTCATAAATAAAGAAATTAGAAATTAATATATAGTAA
*
60690955 AATAGAACTTT-GGCCCTCT
66 AATAGAACTTTAGCCCCT-T
* *
60690974 CAAAATGAAAAATTTTCAATTCAAACCTCTTATAAATAAAGAAATTAGAAATTAATATAT-GATA
1 AAAAATGAAAAATTTTCAATTCAAACCTCTCATAAATAAAGAAATTAGAAATTAATATATAG-TA
*
60691038 AAATTA-CACTTTAGCCCCTT
65 AAA-TAGAACTTTAGCCCCTT
60691058 AAAAATGAAAAA
1 AAAAATGAAAAA
60691070 AATTATGTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
83 1 0.01
84 74 0.90
85 7 0.09
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.32
Consensus pattern (84 bp):
AAAAATGAAAAATTTTCAATTCAAACCTCTCATAAATAAAGAAATTAGAAATTAATATATAGTAA
AATAGAACTTTAGCCCCTT
Found at i:60691113 original size:23 final size:23
Alignment explanation
Indices: 60691087--60691130 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
60691077 TTTAATATCT
60691087 TTAAAAAATAATAAAATTATAAA
1 TTAAAAAATAATAAAATTATAAA
* *
60691110 TTAATACATAATAAAATTATA
1 TTAAAAAATAATAAAATTATA
60691131 TTTTGATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TTAAAAAATAATAAAATTATAAA
Found at i:60691487 original size:30 final size:30
Alignment explanation
Indices: 60691451--60691507 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
60691441 ACTTCACTAT
60691451 TTTTATTAAAAAACTAATTTTAGTCCCTAC
1 TTTTATTAAAAAACTAATTTTAGTCCCTAC
* *
60691481 TTTTATTAAAAAATTCATTTTAGTCCC
1 TTTTATTAAAAAACTAATTTTAGTCCC
60691508 GCGTTGGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.46
Consensus pattern (30 bp):
TTTTATTAAAAAACTAATTTTAGTCCCTAC
Found at i:60692063 original size:97 final size:98
Alignment explanation
Indices: 60691876--60692113 Score: 251
Period size: 97 Copynumber: 2.5 Consensus size: 98
60691866 TTTTAATCTC
* * * *
60691876 TTAAAAAGTTAATTTTTAATCCCACACTGGCTAGA-ATACACTCTC----ATA-CCCACACTTAC
1 TTAAAAAATTAA-TTTTAATCCCACATTGACTAGAGA-ACACTCTCATATATATCTCACACTTAC
* ** *
60691935 CCTATAAATAAGTGTCAATTTCTTCCATATTTTTA
64 CATATAAATAAGTGAAAATTTCTTCCATATTTTCA
* * *
60691970 TTAAAAAATTAATTTTAATTCCACATTGACTTGAGAACACTC-CATATATATCTCACATTTACCA
1 TTAAAAAATTAATTTTAATCCCACATTGACTAGAGAACACTCTCATATATATCTCACACTTACCA
60692034 TATAAATAAGTGAAAATCTT-TT-CACTATTTTCA
66 TATAAATAAGTGAAAAT-TTCTTCCA-TATTTTCA
* * *
60692067 TTAAAAAGTTTATTTTAATCCCACATTGACTAGAGAATACTCTCATA
1 TTAAAAAATTAATTTTAATCCCACATTGACTAGAGAACACTCTCATA
60692114 CCTTACTTCT
Statistics
Matches: 119, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
92 1 0.01
93 24 0.20
94 12 0.10
96 5 0.04
97 71 0.60
98 6 0.05
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (98 bp):
TTAAAAAATTAATTTTAATCCCACATTGACTAGAGAACACTCTCATATATATCTCACACTTACCA
TATAAATAAGTGAAAATTTCTTCCATATTTTCA
Found at i:60692246 original size:50 final size:50
Alignment explanation
Indices: 60692191--60692340 Score: 159
Period size: 50 Copynumber: 3.1 Consensus size: 50
60692181 CACGTTTTAT
* * *
60692191 TTTAATCCCATATTCACTAAAGAATACTTCAATAGGTTATTTCTTTACTA
1 TTTAATCCCACATTCACTAAAGAATACTTCAATAGCTTACTTCTTTACTA
* * * * *
60692241 TTTAATCCCGCA-TCGA-TTAGGTAATACTTTAATAGCTTACAT-TTTA-T-
1 TTTAATCCCACATTC-ACTAAAG-AATACTTCAATAGCTTACTTCTTTACTA
60692288 TTTAATCCCACATTCACTAAAGAATAC-TCTAATAGCTTACTTCTTTACTA
1 TTTAATCCCACATTCACTAAAGAATACTTC-AATAGCTTACTTCTTTACTA
60692338 TTT
1 TTT
60692341 TTATTAAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
46 1 0.01
47 28 0.35
48 10 0.13
49 10 0.13
50 30 0.38
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (50 bp):
TTTAATCCCACATTCACTAAAGAATACTTCAATAGCTTACTTCTTTACTA
Found at i:60692314 original size:47 final size:47
Alignment explanation
Indices: 60692173--60692327 Score: 152
Period size: 47 Copynumber: 3.2 Consensus size: 47
60692163 GACTAGATAA
* * *
60692173 TAATAGCTCACGTTTTATTTTAATCCCATATTCACTAAAGAATACTT
1 TAATAGCTTACATTTTATTTTAATCCCACATTCACTAAAGAATACTT
* * ** * * *
60692220 CAATAGGTTATTTCTTTACTATTTAATCCCGCA-TCGA-TTAGGTAATACTT
1 TAATAGCTTACAT-TTTA-T-TTTAATCCCACATTC-ACTAAAG-AATACTT
*
60692270 TAATAGCTTACATTTTATTTTAATCCCACATTCACTAAAGAATACTC
1 TAATAGCTTACATTTTATTTTAATCCCACATTCACTAAAGAATACTT
60692317 TAATAGCTTAC
1 TAATAGCTTAC
60692328 TTCTTTACTA
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
47 37 0.44
48 10 0.12
49 10 0.12
50 27 0.32
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (47 bp):
TAATAGCTTACATTTTATTTTAATCCCACATTCACTAAAGAATACTT
Found at i:60693044 original size:3 final size:3
Alignment explanation
Indices: 60693036--60693063 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
60693026 ACGGGTTGAT
60693036 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
60693064 GTTTTTCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:60693685 original size:16 final size:17
Alignment explanation
Indices: 60693664--60693703 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
60693654 ATTAAAAATA
60693664 TAATTTTATCATTT-AT
1 TAATTTTATCATTTCAT
60693680 TAA-TTTATCATTTCAT
1 TAATTTTATCATTTCAT
*
60693696 TATTTTTA
1 TAATTTTA
60693704 AAGGACTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 10 0.48
16 7 0.33
17 4 0.19
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTTTATCATTTCAT
Found at i:60696058 original size:25 final size:22
Alignment explanation
Indices: 60696021--60696071 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
60696011 GAATTGATTG
*
60696021 ATATTTTTAAAAAAAATATTTAAT
1 ATATTTTT--AAAAAATATATAAT
*
60696045 ATATTTTTCTAAAAATATATAAT
1 ATATTTTT-AAAAAATATATAAT
60696068 ATAT
1 ATAT
60696072 GGATATGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTTTTAAAAAATATATAAT
Found at i:60699483 original size:30 final size:31
Alignment explanation
Indices: 60699401--60699486 Score: 111
Period size: 30 Copynumber: 2.8 Consensus size: 31
60699391 TTTGAGGGAT
*
60699401 TTAATGAGAATTTTCAAAAATTTTGGTAGGC
1 TTAATGAGAATTTTAAAAAATTTTGGTAGGC
* * * *
60699432 CTAATTAGAACTTTAACAAATTTTGG-AGGC
1 TTAATGAGAATTTTAAAAAATTTTGGTAGGC
*
60699462 TTAATGAGAGTTTTAAAAAATTTTG
1 TTAATGAGAATTTTAAAAAATTTTG
60699487 AAATGCTTCA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 24 0.53
31 21 0.47
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.38
Consensus pattern (31 bp):
TTAATGAGAATTTTAAAAAATTTTGGTAGGC
Found at i:60700627 original size:23 final size:23
Alignment explanation
Indices: 60700601--60700646 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
60700591 AATAATGGAT
60700601 AATTTTTAATTTTGATCCTCTAC
1 AATTTTTAATTTTGATCCTCTAC
60700624 AATTTTTAATTTTGATCCTCTAC
1 AATTTTTAATTTTGATCCTCTAC
60700647 TTTTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.04, T:0.52
Consensus pattern (23 bp):
AATTTTTAATTTTGATCCTCTAC
Found at i:60700725 original size:31 final size:31
Alignment explanation
Indices: 60700682--60700742 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
60700672 TATGTATATC
* * *
60700682 ACTATTCGAAAGTTTTTACTTAAGTCATTGA
1 ACTATTCAAAAGTTCTTAATTAAGTCATTGA
*
60700713 ACTATTCAAAAGTTCTTAATTTAGTCATTG
1 ACTATTCAAAAGTTCTTAATTAAGTCATTG
60700743 GACCGCTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (31 bp):
ACTATTCAAAAGTTCTTAATTAAGTCATTGA
Found at i:60701334 original size:33 final size:33
Alignment explanation
Indices: 60701290--60701392 Score: 137
Period size: 33 Copynumber: 3.3 Consensus size: 33
60701280 AACCAACTTG
60701290 ACCGATTTTAGTTGAGAAAATCAATCAAACTGA
1 ACCGATTTTAGTTGAGAAAATCAATCAAACTGA
*
60701323 ATCGATTTTAGTTGAGAAAA-C---C-AACTTG-
1 ACCGATTTTAGTTGAGAAAATCAATCAAAC-TGA
*
60701351 CCCGATTTTAGTTGAGAAAATCAATCAAACTGA
1 ACCGATTTTAGTTGAGAAAATCAATCAAACTGA
60701384 ACCGATTTT
1 ACCGATTTT
60701393 GATTCGATCG
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
28 21 0.36
29 4 0.07
32 4 0.07
33 30 0.51
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (33 bp):
ACCGATTTTAGTTGAGAAAATCAATCAAACTGA
Found at i:60701356 original size:61 final size:61
Alignment explanation
Indices: 60701278--60701392 Score: 212
Period size: 61 Copynumber: 1.9 Consensus size: 61
60701268 TTAACATGAT
*
60701278 AAAACCAACTTGACCGATTTTAGTTGAGAAAATCAATCAAACTGAATCGATTTTAGTTGAG
1 AAAACCAACTTGACCGATTTTAGTTGAGAAAATCAATCAAACTGAACCGATTTTAGTTGAG
*
60701339 AAAACCAACTTGCCCGATTTTAGTTGAGAAAATCAATCAAACTGAACCGATTTT
1 AAAACCAACTTGACCGATTTTAGTTGAGAAAATCAATCAAACTGAACCGATTTT
60701393 GATTCGATCG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (61 bp):
AAAACCAACTTGACCGATTTTAGTTGAGAAAATCAATCAAACTGAACCGATTTTAGTTGAG
Found at i:60701357 original size:28 final size:28
Alignment explanation
Indices: 60701278--60701370 Score: 107
Period size: 28 Copynumber: 3.1 Consensus size: 28
60701268 TTAACATGAT
60701278 AAAACCAACTTGACCGATTTTAGTTGAG
1 AAAACCAACTTGACCGATTTTAGTTGAG
*
60701306 AAAATCAATCAAAC-TGAATCGATTTTAGTTGAG
1 AAAA-C---C-AACTTG-ACCGATTTTAGTTGAG
*
60701339 AAAACCAACTTGCCCGATTTTAGTTGAG
1 AAAACCAACTTGACCGATTTTAGTTGAG
60701367 AAAA
1 AAAA
60701371 TCAATCAAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
28 25 0.45
29 4 0.07
32 4 0.07
33 22 0.40
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (28 bp):
AAAACCAACTTGACCGATTTTAGTTGAG
Found at i:60701580 original size:22 final size:22
Alignment explanation
Indices: 60701552--60701599 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
60701542 AACTAATGAC
60701552 CAATCGAATTAACCGATTAAAT
1 CAATCGAATTAACCGATTAAAT
*
60701574 CAATCGAATTAACTGATTAAAT
1 CAATCGAATTAACCGATTAAAT
60701596 CAAT
1 CAAT
60701600 GTCAAAACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (22 bp):
CAATCGAATTAACCGATTAAAT
Found at i:60702143 original size:13 final size:13
Alignment explanation
Indices: 60702127--60702171 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
60702117 TTTAAACTAA
60702127 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
* * *
60702140 ACTTTTCCACAAT
1 ACTTTTCAAAAAC
60702153 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
60702166 ACTTTT
1 ACTTTT
60702172 ACACAGTACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:60702156 original size:26 final size:26
Alignment explanation
Indices: 60702127--60702189 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
60702117 TTTAAACTAA
*
60702127 ACTTTTCAAAAACACTTTTCCACAAT
1 ACTTTTCAAAAACACTTTTACACAAT
*
60702153 ACTTTTCAAAAACACTTTTACACAGT
1 ACTTTTCAAAAACACTTTTACACAAT
60702179 ACTTTTCAAAA
1 ACTTTTCAAAA
60702190 GCATTGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.35
Consensus pattern (26 bp):
ACTTTTCAAAAACACTTTTACACAAT
Found at i:60713676 original size:37 final size:37
Alignment explanation
Indices: 60713626--60713699 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
60713616 TATTGTATTT
60713626 TCAGTTTCTTATTCAAGTTTATGAAATCATCTTTTAA
1 TCAGTTTCTTATTCAAGTTTATGAAATCATCTTTTAA
60713663 TCAGTTTCTTATTCAAGTTTATGAAATCATCTTTTAA
1 TCAGTTTCTTATTCAAGTTTATGAAATCATCTTTTAA
60713700 CTCTTACCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.49
Consensus pattern (37 bp):
TCAGTTTCTTATTCAAGTTTATGAAATCATCTTTTAA
Found at i:60729352 original size:21 final size:20
Alignment explanation
Indices: 60729323--60729361 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
60729313 ATCAAAGTTG
*
60729323 AAAAGAAAATGAAGAAATATC
1 AAAAGAAAACGAA-AAATATC
*
60729344 AAAATAAAACGAAAAATA
1 AAAAGAAAACGAAAAATA
60729362 AATGTGCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.13
Consensus pattern (20 bp):
AAAAGAAAACGAAAAATATC
Found at i:60741623 original size:32 final size:32
Alignment explanation
Indices: 60741557--60741624 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
60741547 GTTAAATTTC
* * * *
60741557 TAATTAATCCTAATTTTTTCGAGGCTTTGGAT
1 TAATTAATCCTAATATATTCAAGGATTTGGAT
*
60741589 TAATTAATCCTAATATATTCAAGGATTTGTAT
1 TAATTAATCCTAATATATTCAAGGATTTGGAT
60741621 TAAT
1 TAAT
60741625 CAACCTCTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (32 bp):
TAATTAATCCTAATATATTCAAGGATTTGGAT
Found at i:60745691 original size:134 final size:134
Alignment explanation
Indices: 60745456--60745838 Score: 540
Period size: 134 Copynumber: 2.8 Consensus size: 134
60745446 AATGAATGGT
* *
60745456 ATCCCTCTTAGTTTACTGATAAGCTGCTAATAGTAATGTGTAAAACCGTGTGTAAATGGTTCTCA
1 ATCCCTCTTAGTTTACTGATAAACTGCTAATAGTAATGTGTAAAA-C-TGTGTAAATAGTTCTCA
* *
60745521 AAGCATGAGCCAGTTAATATGAATAGAATTGGATGAAATGAAGTAATTTTAGACCTGAATAAACG
64 AAGCATGAGCTAGTTAATATGAATAGAATTGGATGAAATGAAGTAATTTTAGACCCGAATAAACG
60745586 AATGAC
129 AATGAC
*
60745592 GTCCCTCTTAGTTTACTGATAAACTGCTAATAGTAATGTGTAAAACTGTGTAAATAGTTCTCAAA
1 ATCCCTCTTAGTTTACTGATAAACTGCTAATAGTAATGTGTAAAACTGTGTAAATAGTTCTCAAA
* * *
60745657 GCATGAACTAGTTAATATGAATAGAATTGGATGAAATGAAGTAACTTTAGACCCGAATAAATGAA
66 GCATGAGCTAGTTAATATGAATAGAATTGGATGAAATGAAGTAATTTTAGACCCGAATAAACGAA
60745722 TGAC
131 TGAC
* * *
60745726 ATCCCTCTTAGTTTACTGAT-AATTTCTGATAGT-ATGTGTTAAGCAA-TGTGTAAATAGTTCTC
1 ATCCCTCTTAGTTTACTGATAAACTGCTAATAGTAATGTG-TAA--AACTGTGTAAATAGTTCTC
* * * * *
60745788 -GAGCCATGAGTTAATTAATATGAACAGAGTTGGATGAAATGAAGTAATTTT
63 AAAG-CATGAGCTAGTTAATATGAATAGAATTGGATGAAATGAAGTAATTTT
60745839 TAGTGTTGAA
Statistics
Matches: 224, Mismatches: 19, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
132 5 0.02
133 15 0.07
134 158 0.71
135 3 0.01
136 43 0.19
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (134 bp):
ATCCCTCTTAGTTTACTGATAAACTGCTAATAGTAATGTGTAAAACTGTGTAAATAGTTCTCAAA
GCATGAGCTAGTTAATATGAATAGAATTGGATGAAATGAAGTAATTTTAGACCCGAATAAACGAA
TGAC
Found at i:60747866 original size:32 final size:31
Alignment explanation
Indices: 60747807--60747872 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
60747797 TGGTCTAATT
**
60747807 AAATTTTTAATTTTTTTGTGAGATTAA-TAA
1 AAATTTTTAATTTTTAAGTGAGATTAATTAA
*
60747837 AAATTTTTAAATATTTTAAGTGAGTTTAATTAA
1 AAATTTTT-AAT-TTTTAAGTGAGATTAATTAA
60747870 AAA
1 AAA
60747873 AAATTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 8 0.27
31 3 0.10
32 13 0.43
33 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (31 bp):
AAATTTTTAATTTTTAAGTGAGATTAATTAA
Found at i:60750539 original size:27 final size:26
Alignment explanation
Indices: 60750484--60750539 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
60750474 AAAAGTTAAA
* * *
60750484 ATTACATTTAGTTTTTTTAAAATTTT
1 ATTACATTTAGTTATTTTAAAAATAT
*
60750510 ATTACCTTTAAGTTATTTTAAAAATAT
1 ATTACATTT-AGTTATTTTAAAAATAT
60750537 ATT
1 ATT
60750540 TATAATTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (26 bp):
ATTACATTTAGTTATTTTAAAAATAT
Found at i:60759821 original size:28 final size:29
Alignment explanation
Indices: 60759752--60759822 Score: 101
Period size: 27 Copynumber: 2.5 Consensus size: 29
60759742 CCAAATATAA
*
60759752 TAAATATATATTTTTTTATTTTTTTATTTT
1 TAAA-ATAAATTTTTTTATTTTTTTATTTT
*
60759782 TAAAAT-ACTTTTTTTA-TTTTTTATTTT
1 TAAAATAAATTTTTTTATTTTTTTATTTT
60759809 TAAAATAAATTTTT
1 TAAAATAAATTTTT
60759823 GGTGTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 17 0.46
28 14 0.38
29 2 0.05
30 4 0.11
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (29 bp):
TAAAATAAATTTTTTTATTTTTTTATTTT
Found at i:60759830 original size:26 final size:27
Alignment explanation
Indices: 60759774--60759832 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
60759764 TTTTTATTTT
** * *
60759774 TTTATTTTTAAAATACTTTTTTTATTT
1 TTTATTTTTAAAATACAATTTTTAGTG
*
60759801 TTTATTTTTAAAATA-AATTTTTGGTG
1 TTTATTTTTAAAATACAATTTTTAGTG
60759827 TTTATT
1 TTTATT
60759833 AAAAAAATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTATTTTTAAAATACAATTTTTAGTG
Found at i:60760643 original size:18 final size:18
Alignment explanation
Indices: 60760591--60760645 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
60760581 ATCAATAAAT
*
60760591 AATTT-AAAATTTATAAA
1 AATTTCAAAATTTAAAAA
**
60760608 AATATTCAAAAAAATAAAAA
1 AAT-TTC-AAAATTTAAAAA
60760628 AATTTCAAAATTTAAAAA
1 AATTTCAAAATTTAAAAA
60760646 CGAATTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.10
18 12 0.40
19 3 0.10
20 12 0.40
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
AATTTCAAAATTTAAAAA
Found at i:60766257 original size:31 final size:30
Alignment explanation
Indices: 60766176--60766258 Score: 73
Period size: 31 Copynumber: 2.7 Consensus size: 30
60766166 TTTTGGGAGT
*
60766176 TTAATAATAATTTC-CAAAATTTTTGAAGAC
1 TTAATAATAATTTCTCAAAA-TTATGAAGAC
* * *
60766206 CTAATTAAAAATTT-TAAAAATTATGAAGGGA-
1 TTAA-TAATAATTTCTCAAAATTATGAA--GAC
60766237 TTAATAATAATTTCTCAAAATT
1 TTAATAATAATTTCTCAAAATT
60766259 TTAAGGTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
30 17 0.41
31 22 0.54
32 2 0.05
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (30 bp):
TTAATAATAATTTCTCAAAATTATGAAGAC
Found at i:60773570 original size:22 final size:25
Alignment explanation
Indices: 60773544--60773597 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
60773534 TTATAAATTC
60773544 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
60773566 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
60773591 AATTTAA
1 AATTTAA
60773598 TCATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:60774356 original size:31 final size:29
Alignment explanation
Indices: 60774318--60774386 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
60774308 TATATTATAG
*
60774318 ATAATGATAAATGAAATT-TAAATAATTTAAA
1 ATAATGATAAAT-AAATTATAAAT--TATAAA
*
60774349 ATAATGATATATAAATTATAAATTATAAA
1 ATAATGATAAATAAATTATAAATTATAAA
60774378 ATAAT-ATAA
1 ATAATGATAA
60774387 CTTTTTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 3 0.09
29 10 0.29
30 5 0.15
31 16 0.47
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (29 bp):
ATAATGATAAATAAATTATAAATTATAAA
Found at i:60777848 original size:22 final size:22
Alignment explanation
Indices: 60777823--60777866 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
60777813 ATCCGGATAA
*
60777823 CTCTTTGTAAAAACTCAAGTGT
1 CTCTTTGTAAAAACACAAGTGT
*
60777845 CTCTTTGTGAAAACACAAGTGT
1 CTCTTTGTAAAAACACAAGTGT
60777867 TTTTCCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (22 bp):
CTCTTTGTAAAAACACAAGTGT
Found at i:60788332 original size:19 final size:19
Alignment explanation
Indices: 60788308--60788348 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
60788298 TTTTTTCGGG
*
60788308 TTTAGGGTTATGTTATAAA
1 TTTAGGATTATGTTATAAA
60788327 TTTAGGATTATGTTATAAA
1 TTTAGGATTATGTTATAAA
60788346 TTT
1 TTT
60788349 TTGTGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
TTTAGGATTATGTTATAAA
Found at i:60788591 original size:19 final size:19
Alignment explanation
Indices: 60788559--60788610 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
60788549 GTTCATACAA
60788559 ATTAT-TTA-AAATTTAGG
1 ATTATGTTATAAATTTAGG
60788576 ATTATGTTATAAATTTAGG
1 ATTATGTTATAAATTTAGG
60788595 ATTATGTTATAAATTT
1 ATTATGTTATAAATTT
60788611 TTGTGTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 25 0.76
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
ATTATGTTATAAATTTAGG
Found at i:60788809 original size:27 final size:27
Alignment explanation
Indices: 60788773--60788829 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
60788763 ATATCCCGAC
60788773 ATTACAATATTCACACAAAATTACAAT
1 ATTACAATATTCACACAAAATTACAAT
* * *
60788800 ATTACAATATTCATATAAAATTGCAAT
1 ATTACAATATTCACACAAAATTACAAT
60788827 ATT
1 ATT
60788830 TTTTTGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCACACAAAATTACAAT
Found at i:60788895 original size:22 final size:24
Alignment explanation
Indices: 60788862--60788934 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 24
60788852 ATAGATTATC
*
60788862 TATATTTAGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
60788886 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
60788910 TATAATTTTGTATGAATATTGTAAT
1 TAT-ATTTTGTATGAATATTGTAAT
60788935 ATTGTAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 16 0.37
23 2 0.05
24 4 0.09
25 3 0.07
26 1 0.02
27 17 0.40
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (24 bp):
TATATTTTGTATGAATATTGTAAT
Found at i:60788910 original size:8 final size:8
Alignment explanation
Indices: 60788897--60788995 Score: 63
Period size: 8 Copynumber: 11.4 Consensus size: 8
60788887 TTTTTGTATG
60788897 AATATTGT
1 AATATTGT
*
60788905 AATATTAT
1 AATATTGT
*
60788913 AATTTTGTAT
1 AATATTG--T
60788923 GAATATTGT
1 -AATATTGT
60788932 AATATTGT
1 AATATTGT
*
60788940 AATATTAT
1 AATATTGT
*
60788948 AATTTTGTAT
1 AATATTG--T
60788958 GAATATTGT
1 -AATATTGT
* * *
60788967 AATGTCGAG
1 AATATTG-T
60788976 ATATATTGT
1 A-ATATTGT
60788985 AATATTGT
1 AATATTGT
60788993 AAT
1 AAT
60788996 TTTTTGTATG
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
8 47 0.68
9 4 0.06
10 6 0.09
11 12 0.17
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.48
Consensus pattern (8 bp):
AATATTGT
Found at i:60788926 original size:27 final size:27
Alignment explanation
Indices: 60788888--60789016 Score: 124
Period size: 27 Copynumber: 4.7 Consensus size: 27
60788878 ATTGTAATTT
*
60788888 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTGTAA
60788915 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATTGTAA
* *
60788942 -TAT-TAT-AATTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTG--T-AATATTGTAA
* *
60788969 TGTCG-A-GATATATTGTAATATTGTAA
1 TTTTGTATGA-ATATTGTAATATTGTAA
60788995 TTTTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTGTAAT
60789017 TATTTTATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
24 6 0.07
25 3 0.04
26 13 0.16
27 37 0.45
28 5 0.06
29 16 0.20
30 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTGTAA
Found at i:60788929 original size:19 final size:19
Alignment explanation
Indices: 60788905--60788969 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 19
60788895 TGAATATTGT
60788905 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
* *
60788924 AATATTGTAATATTG--T-
1 AATATTATAATTTTGTATG
60788940 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
*
60788959 AATATTGTAAT
1 AATATTATAAT
60788970 GTCGAGATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 13 0.34
17 1 0.03
18 1 0.03
19 23 0.61
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:60788936 original size:35 final size:35
Alignment explanation
Indices: 60788897--60788969 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
60788887 TTTTTGTATG
60788897 AATATTGTAATATTATAATTTTGTATGAATATTGT
1 AATATTGTAATATTATAATTTTGTATGAATATTGT
60788932 AATATTGTAATATTATAATTTTGTATGAATATTGT
1 AATATTGTAATATTATAATTTTGTATGAATATTGT
60788967 AAT
1 AAT
60788970 GTCGAGATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (35 bp):
AATATTGTAATATTATAATTTTGTATGAATATTGT
Found at i:60800545 original size:27 final size:27
Alignment explanation
Indices: 60800504--60800556 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
60800494 GAAAAATAGA
60800504 AAAAATATATATTTTAATGGATGTCGC
1 AAAAATATATATTTTAATGGATGTCGC
*
60800531 AAAAATATATTTTTTAATGGATGTCG
1 AAAAATATATATTTTAATGGATGTCG
60800557 TTGGTTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (27 bp):
AAAAATATATATTTTAATGGATGTCGC
Found at i:60815675 original size:43 final size:42
Alignment explanation
Indices: 60815599--60816214 Score: 411
Period size: 43 Copynumber: 14.4 Consensus size: 42
60815589 ATATCCTATC
*
60815599 CCTATATTGGTAGGAAGTAGATCA-AAGATGCAGATCTTGTCTT
1 CCTATATTGGTGGGAAGTAGATCAGAA-A-GCAGATCTTGTCTT
*
60815642 CCCATATTGGTGGCGAAGTAGATCAGAAAGCAGATCTTGTCTT
1 CCTATATTGGTGG-GAAGTAGATCAGAAAGCAGATCTTGTCTT
* * * * * *
60815685 CATGTATTGGCGTGAAGTAGATCA-AAGTAGTAGATCCT-TCTT
1 CCTATATTGGTGGGAAGTAGATCAGAA--AGCAGATCTTGTCTT
* * *
60815727 CCTATATTGGTAGGAAGTGGATC-GACGATGCAGATCTTGTCTT
1 CCTATATTGGTGGGAAGTAGATCAGA--AAGCAGATCTTGTCTT
*
60815770 CCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
1 CCTATATTGGTGG-GAAGTAGAT--CAGAAAGCAGATCTTGTCTT
* * * * * * * *
60815815 CATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTC-TATCTT
1 CCTATATTGGTGGGAAGTAGATC--AGAAAGCAGATCTTGTCTT
* * *
60815858 CCTATATTGGTAGGAAGTGGATC-GACGATGCAGATCTTGTCTT
1 CCTATATTGGTGGGAAGTAGATCAGA--AAGCAGATCTTGTCTT
*
60815901 CCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
1 CCTATATTGGTGG-GAAGTAGAT--CAGAAAGCAGATCTTGTCTT
* * * * * * *
60815946 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTC--CTCTT
1 CCTATATTGGTGGGAAGTAGATC--AGAAAGCAGATCTTGTCTT
* * *
60815988 CCTATATTGGTAGGAAGTGGATC-GACGATGCAGATCTTTGTCTT
1 CCTATATTGGTGGGAAGTAGATCAGA--AAGCAGATC-TTGTCTT
* * *
60816032 CCCATAATGGTGGCGAAGTAGAACAGAAAGCAGATCTTGTCTT
1 CCTATATTGGTGG-GAAGTAGATCAGAAAGCAGATCTTGTCTT
* * * * * * *
60816075 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTC-TATCTT
1 CCTATATTGGTGGGAAGTAGATC--AGAAAGCAGATCTTGTCTT
*
60816118 CCTATA-T-G-GGGAAGTGGATC-G-AAGCAGATCTTGTCTT
1 CCTATATTGGTGGGAAGTAGATCAGAAAGCAGATCTTGTCTT
* * * * *
60816155 CATGTATTGG-GCGAAGTAGATCGAAGATAGCAGATCCTG-CTT
1 CCTATATTGGTGGGAAGTAGATC--AGAAAGCAGATCTTGTCTT
*
60816197 CCTATATTGGTAGGAAGT
1 CCTATATTGGTGGGAAGT
60816215 GGATTGAAAA
Statistics
Matches: 436, Mismatches: 97, Indels: 80
0.71 0.16 0.13
Matches are distributed among these distances:
36 7 0.02
37 10 0.02
38 1 0.00
39 13 0.03
40 12 0.03
41 9 0.02
42 90 0.21
43 132 0.30
44 98 0.22
45 56 0.13
46 4 0.01
47 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
CCTATATTGGTGGGAAGTAGATCAGAAAGCAGATCTTGTCTT
Found at i:60815890 original size:131 final size:131
Alignment explanation
Indices: 60815599--60816190 Score: 926
Period size: 131 Copynumber: 4.6 Consensus size: 131
60815589 ATATCCTATC
* * *
60815599 CCTATATTGGTAGGAAGTAGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
1 CCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
* * *
60815664 T--CAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG-TAGTAGATCCT-TC
66 TCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGT-CTATC
60815725 TT
130 TT
60815727 CCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
1 CCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
*
60815792 TCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCTATCT
66 TCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCTATCT
60815857 T
131 T
60815858 CCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
1 CCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
*
60815923 TCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTC-CTCT
66 TCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCTATCT
60815987 T
131 T
*
60815988 CCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTTGTCTTCCCATAATGGTGGCGAAGTAG
1 CCTATATTGGTAGGAAGTGGATCGACGATGCAGATC-TTGTCTTCCCATATTGGTGGCGAAGTAG
*
60816053 A--ACAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCTATC
65 ATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCTATC
60816116 TT
130 TT
***
60816118 CCTATA-TGG--GGAAGTGGATCGA--A-GCAGATCTTGTCTTCATGTATT-G-GGCGAAGTAGA
1 CCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
* *
60816175 TCGAAGATAGCAGATC
66 TCGCAGAAAGCAGATC
60816191 CTGCTTCCTA
Statistics
Matches: 439, Mismatches: 17, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
121 11 0.03
122 1 0.00
123 22 0.05
124 7 0.02
125 1 0.00
127 13 0.03
128 63 0.14
129 60 0.14
130 98 0.22
131 163 0.37
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (131 bp):
CCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
TCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCTATCT
T
Found at i:60828745 original size:132 final size:132
Alignment explanation
Indices: 60828503--60829119 Score: 993
Period size: 132 Copynumber: 4.7 Consensus size: 132
60828493 AAGGAACATA
* * * *
60828503 TCCTATCTTCCTATATTGGTAGGAAGTAGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
60828568 CGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
60828633 GG
131 GG
*
60828635 TCTTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
*
60828700 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
60828765 GG
131 GG
* *
60828767 TCTTGTCTTCCTATATTGGTAGGGAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
60828832 CGAAATAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
60828897 GG
131 GG
* * *
60828899 TCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATTTTGTCTTCCCATAATGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
60828964 CGAAGTAGATCACAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
60829029 GG
131 GG
* * * *** *
60829031 TCCTATCTTCCTATATGGGTAGGAAGTGGATCGACGACGCAGATCTTGTCTTCATGTATTGG-CG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
60829095 CGAAGTAGATCGAAGATAGCAGATC
66 CGAAGTAGATCGCAGAAAGCAGATC
60829120 CTGCCTTCCT
Statistics
Matches: 453, Mismatches: 32, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
131 23 0.05
132 430 0.95
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (132 bp):
TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCA
GG
Found at i:60829144 original size:44 final size:45
Alignment explanation
Indices: 60828508--60829144 Score: 554
Period size: 44 Copynumber: 14.5 Consensus size: 45
60828498 ACATATCCTA
*
60828508 TCTTCCTATATTGGTAG-GAAGTAGATCAAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
60828551 TCTTCCCATATTGGTGGCGAAGTAGATC-ACAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGA-AGATAGCAGATCTTG
* * * * * * *
60828596 TCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTAGGTCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* *
60828640 TCTTCCTATATTGGTAG-GAAGTGGATCGACGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
60828683 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * * *
60828728 TCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGTAGGTCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
60828772 TCTTCCTATATTGGTAG-GGAGTGGATCGACGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
60828815 TCTTCCCATATTGGTGGCGAAATAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * * * **
60828860 TCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAACAGGTCCGG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * *
60828904 TCTTCCTATATTGGTAG-GAAGTGGATCGACGAT-GCAGATTTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
60828947 TCTTCCCATAATGGTGGCGAAGTAGATC-ACAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGA-AGATAGCAGATCTTG
* * * * * * *
60828992 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTA
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
60829036 TCTTCCTATATGGGTAG-GAAGTGGATCGACGA-CGCAGATCTTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
60829079 TCTTCATGTATTGG-CGCGAAGTAGATCGAAGATAGCAGATCCTG
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
*
60829123 CCTTCCTATATTGGTAG-GAAGT
1 TCTTCCTATATTGGTAGCGAAGT
60829145 GGATTGAAAA
Statistics
Matches: 460, Mismatches: 115, Indels: 37
0.75 0.19 0.06
Matches are distributed among these distances:
42 1 0.00
43 113 0.25
44 257 0.56
45 89 0.19
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (45 bp):
TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTG
Found at i:60834303 original size:22 final size:20
Alignment explanation
Indices: 60834261--60834303 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
60834251 AATTATAAGA
**
60834261 TATGCATATATATATTCAAG
1 TATGCATATATATATGAAAG
60834281 TATGCATATATATTTATGAAAG
1 TATGCATATATA--TATGAAAG
60834303 T
1 T
60834304 TAAAAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
22 7 0.37
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (20 bp):
TATGCATATATATATGAAAG
Found at i:60834710 original size:12 final size:12
Alignment explanation
Indices: 60834672--60834710 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
60834662 GAAATATATA
*
60834672 AATAATATCAAT
1 AATAATATTAAT
*
60834684 AATAATAGTAAT
1 AATAATATTAAT
*
60834696 AATAATATTATT
1 AATAATATTAAT
60834708 AAT
1 AAT
60834711 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:60836420 original size:13 final size:13
Alignment explanation
Indices: 60836402--60836431 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60836392 TCCAGCAACT
60836402 ATGAATTTATTTC
1 ATGAATTTATTTC
*
60836415 ATGAATTTATTTG
1 ATGAATTTATTTC
60836428 ATGA
1 ATGA
60836432 TGGTCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:60836604 original size:50 final size:50
Alignment explanation
Indices: 60836526--60836718 Score: 269
Period size: 50 Copynumber: 3.8 Consensus size: 50
60836516 ATTTGGGTAA
*
60836526 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
60836576 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
60836626 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
60836676 AGAACATCCCATGTAAGACCATGTCTGGGACATAGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
60836719 TGTTATTACC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 92 0.74
51 33 0.26
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:60841839 original size:31 final size:32
Alignment explanation
Indices: 60841803--60841867 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
60841793 CTTAGATAAT
* *
60841803 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATCACGATTCAATTACTC
60841834 TTTAAAGAGTTTTTATCACGATTCAATTACTC
1 TTTAAAGAGTTTTTATCACGATTCAATTACTC
60841866 TT
1 TT
60841868 GTAATTTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATCACGATTCAATTACTC
Found at i:60843786 original size:17 final size:17
Alignment explanation
Indices: 60843749--60843794 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
60843739 GTGTTTTACT
** *
60843749 TATTTTTATTTCGTTTT
1 TATTTTTATTTAATTTC
60843766 TATTTTTATTTAATTTC
1 TATTTTTATTTAATTTC
60843783 TATTATTTATTT
1 TATT-TTTATTT
60843795 TATATTAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (17 bp):
TATTTTTATTTAATTTC
Found at i:60852866 original size:12 final size:12
Alignment explanation
Indices: 60852828--60852866 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
60852818 GAAATATATA
*
60852828 AATAATATCAAT
1 AATAATATTAAT
*
60852840 AATAATAGTAAT
1 AATAATATTAAT
*
60852852 AATAATATTATT
1 AATAATATTAAT
60852864 AAT
1 AAT
60852867 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:60862477 original size:7 final size:7
Alignment explanation
Indices: 60862461--60862492 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
60862451 CTAAAGCTAC
*
60862461 CACTTAT
1 CACTTGT
60862468 CACTTGT
1 CACTTGT
60862475 CACTTGT
1 CACTTGT
60862482 CACTTGT
1 CACTTGT
60862489 CACT
1 CACT
60862493 GATCAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:60862478 original size:58 final size:58
Alignment explanation
Indices: 60862410--60862761 Score: 428
Period size: 58 Copynumber: 6.2 Consensus size: 58
60862400 GCTAAGCTAC
* * *
60862410 CACTTATCACTTG-CTACTTGTCACTGATCAGATAAGAGTAGCTAAAGCTACCACTTAT
1 CACTTGTCACTTGTC-ACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
*
60862468 CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
*
60862526 CACTTG---C----CACTTGTCACTGATCAGATAAGTGTACCTGAAGCTACCACTTAT
1 CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
60862577 CACTTGTCAC-T-T-A----TCACTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTAT
1 CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCT---AC----CACTTAT
* *
60862635 CACTTCTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
60862693 CACTTGTCACTTGTCACTTGTCACGGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
60862751 CACTTGTCACT
1 CACTTGTCACT
60862762 GATCAGAAGT
Statistics
Matches: 259, Mismatches: 15, Indels: 40
0.82 0.05 0.13
Matches are distributed among these distances:
51 74 0.29
54 3 0.01
55 2 0.01
58 148 0.57
59 2 0.01
60 1 0.00
61 1 0.00
62 1 0.00
65 27 0.10
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (58 bp):
CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
Found at i:60862480 original size:51 final size:51
Alignment explanation
Indices: 60862365--60862645 Score: 359
Period size: 51 Copynumber: 5.4 Consensus size: 51
60862355 CTTACGTATG
* * *
60862365 ATCACTTATCACTTATCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
*
60862415 ATCACTTG-CTACTTGTCACTGATCAGATAAGAGTAGCTAAAGCTACCACTTAT
1 ATCACTTGTC-ACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC-T-T
* *
60862468 CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTATCACTT
1 -A----TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* * *
60862524 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTACCTGAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* *
60862575 ATCACTTGTCACTTATCACTGATCAGATAAGTGTAGTTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
* *
60862626 ATCACTTATCACTTCTCACT
1 ATCACTTGTCACTTGTCACT
60862646 TGTCACTTGT
Statistics
Matches: 204, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
49 1 0.00
50 32 0.16
51 121 0.59
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
58 43 0.21
59 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:60862484 original size:14 final size:14
Alignment explanation
Indices: 60862461--60862497 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
60862451 CTAAAGCTAC
60862461 CACTTATCACTTGT
1 CACTTATCACTTGT
*
60862475 CACTTGTCACTTGT
1 CACTTATCACTTGT
*
60862489 CACTGATCA
1 CACTTATCA
60862498 GATAAGTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.38
Consensus pattern (14 bp):
CACTTATCACTTGT
Found at i:60862633 original size:7 final size:7
Alignment explanation
Indices: 60862621--60862664 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
60862611 TTAAAGCTAC
60862621 CACTTAT
1 CACTTAT
60862628 CACTTAT
1 CACTTAT
*
60862635 CACTTCT
1 CACTTAT
*
60862642 CACTTGT
1 CACTTAT
*
60862649 CACTTGT
1 CACTTAT
*
60862656 CACTGAT
1 CACTTAT
60862663 CA
1 CA
60862665 GATAAGTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.23, C:0.32, G:0.07, T:0.39
Consensus pattern (7 bp):
CACTTAT
Found at i:60862695 original size:7 final size:7
Alignment explanation
Indices: 60862685--60862716 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
60862675 GCTGAAGCTA
*
60862685 TCACTTA
1 TCACTTG
60862692 TCACTTG
1 TCACTTG
60862699 TCACTTG
1 TCACTTG
60862706 TCACTTG
1 TCACTTG
60862713 TCAC
1 TCAC
60862717 GGATCAGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
TCACTTG
Found at i:60865970 original size:18 final size:19
Alignment explanation
Indices: 60865935--60865972 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
60865925 ACTTTACCAG
*
60865935 AAAACAAATCTCTTTACAT
1 AAAACAAATATCTTTACAT
60865954 AAAACAAATAT-TTTACAT
1 AAAACAAATATCTTTACAT
60865972 A
1 A
60865973 TACAGCATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAACAAATATCTTTACAT
Found at i:60869767 original size:17 final size:17
Alignment explanation
Indices: 60869745--60869778 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60869735 TTTTTCACAA
60869745 ATCCATCAGGATGAAGG
1 ATCCATCAGGATGAAGG
60869762 ATCCATCAGGATGAAGG
1 ATCCATCAGGATGAAGG
60869779 GTCAATGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (17 bp):
ATCCATCAGGATGAAGG
Found at i:60870127 original size:63 final size:64
Alignment explanation
Indices: 60870050--60870193 Score: 218
Period size: 64 Copynumber: 2.3 Consensus size: 64
60870040 TTAATCTTAG
* * **
60870050 TTTGAAAAATTGAGAATGAAATTAACCACAACTAG-GCAAAAATCAAATTAGTTGGGCCCATGT
1 TTTGGAAAATTGAGAATGAAATTAACCACAACTAGAGCAAAAATCAAATTAGCTGGGCCCACAT
* *
60870113 TTTGGAAAATTGAGAATGAAATTAATCACAACTAGAGCAAAAATCAAATTAGCTGGGCCCGCAT
1 TTTGGAAAATTGAGAATGAAATTAACCACAACTAGAGCAAAAATCAAATTAGCTGGGCCCACAT
*
60870177 TTTGGAAAGTTGAGAAT
1 TTTGGAAAATTGAGAAT
60870194 CATAGTTGTG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
63 33 0.45
64 40 0.55
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (64 bp):
TTTGGAAAATTGAGAATGAAATTAACCACAACTAGAGCAAAAATCAAATTAGCTGGGCCCACAT
Found at i:60871859 original size:2 final size:2
Alignment explanation
Indices: 60871852--60871876 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60871842 ATGGATCTTT
60871852 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
60871877 TTCATTGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60878593 original size:18 final size:17
Alignment explanation
Indices: 60878570--60878603 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60878560 AATAAAGTTG
60878570 CTGAATTGAAATTGAAAA
1 CTGAATT-AAATTGAAAA
*
60878588 CTGAATTTAATTGAAA
1 CTGAATTAAATTGAAA
60878604 GAAAATAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (17 bp):
CTGAATTAAATTGAAAA
Found at i:60890794 original size:31 final size:31
Alignment explanation
Indices: 60890758--60890851 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 31
60890748 TTTAAACCCT
*
60890758 AAAAATTTTAAAATTTTAATTAAATCTTGTA
1 AAAAATTTTAAAATTTTAATTAAATCTTTTA
* * *
60890789 AAAAA-TTCAAAATTTATCATT-AAT-TTTTT
1 AAAAATTTTAAAATTT-TAATTAAATCTTTTA
*
60890818 AAAAATTTTAAAAATTTTGATTAAA-CTTTTA
1 AAAAATTTT-AAAATTTTAATTAAATCTTTTA
60890849 AAA
1 AAA
60890852 CTTAATACTA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
29 8 0.16
30 18 0.35
31 25 0.49
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (31 bp):
AAAAATTTTAAAATTTTAATTAAATCTTTTA
Found at i:60890801 original size:30 final size:30
Alignment explanation
Indices: 60890757--60890851 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
60890747 TTTTAAACCC
* *
60890757 TAAAAATTTTAAAATTTTAATTAAATCTTG
1 TAAAAATTTAAAAATTTTAATTAAATCTTT
* * * *
60890787 TAAAAAATTCAAAATTTATCATT-AATTTTT
1 TAAAAATTTAAAAATTT-TAATTAAATCTTT
*
60890817 TAAAAATTTTAAAAATTTTGATTAAA-CTTT
1 TAAAAA-TTTAAAAATTTTAATTAAATCTTT
60890847 TAAAA
1 TAAAA
60890852 CTTAATACTA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
30 38 0.72
31 15 0.28
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (30 bp):
TAAAAATTTAAAAATTTTAATTAAATCTTT
Found at i:60897465 original size:29 final size:29
Alignment explanation
Indices: 60897423--60897498 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
60897413 ATAGTAATAC
*
60897423 ATAATCATTAATTTAATTCCATTTCATTT
1 ATAAGCATTAATTTAATTCCATTTCATTT
* **
60897452 ATAAGCATTAATTTAATTCTATTTTGTTT
1 ATAAGCATTAATTTAATTCCATTTCATTT
*
60897481 ATAAGAATTAATTTAATT
1 ATAAGCATTAATTTAATT
60897499 ATATTATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (29 bp):
ATAAGCATTAATTTAATTCCATTTCATTT
Found at i:60897915 original size:13 final size:13
Alignment explanation
Indices: 60897897--60897921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60897887 GCTAGGCAAC
60897897 ATTTGGTGATATA
1 ATTTGGTGATATA
60897910 ATTTGGTGATAT
1 ATTTGGTGATAT
60897922 CGATTGAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (13 bp):
ATTTGGTGATATA
Found at i:60911025 original size:22 final size:23
Alignment explanation
Indices: 60910989--60911040 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
60910979 TAGCTAAAAG
* *
60910989 ATCCTCTCATACTTTTCAATTTA-
1 ATCCT-TCAAACTTTTCAATTAAT
60911012 ATCCTTCAAACTTTTCAATTAAT
1 ATCCTTCAAACTTTTCAATTAAT
60911035 ATCCTT
1 ATCCTT
60911041 TAATAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (23 bp):
ATCCTTCAAACTTTTCAATTAAT
Found at i:60918424 original size:21 final size:20
Alignment explanation
Indices: 60918400--60918448 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
60918390 CTCTTGAATT
60918400 GATTGTTTTCCTATTTCAATC
1 GATTGTTTT-CTATTTCAATC
* * * *
60918421 GATTATTTTTTGTTTTAATC
1 GATTGTTTTCTATTTCAATC
60918441 GATTGTTT
1 GATTGTTT
60918449 CAATATCTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.18, C:0.10, G:0.12, T:0.59
Consensus pattern (20 bp):
GATTGTTTTCTATTTCAATC
Found at i:60929479 original size:8 final size:8
Alignment explanation
Indices: 60929466--60929491 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
60929456 GCCCTCTCCT
60929466 CCTTTCTC
1 CCTTTCTC
60929474 CCTTTCTC
1 CCTTTCTC
60929482 CCTTTCTC
1 CCTTTCTC
60929490 CC
1 CC
60929492 CCACATACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (8 bp):
CCTTTCTC
Found at i:60929648 original size:4 final size:4
Alignment explanation
Indices: 60929631--60929671 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
60929621 CATTTCCCCT
*
60929631 TTTA TTTG TTTA TTTA TTTA TTTA TTTA TTTTA TTTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTT
60929672 TAGTTACTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 25 0.74
5 9 0.26
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:60929744 original size:14 final size:15
Alignment explanation
Indices: 60929709--60929746 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
60929699 TTGCTTATTA
*
60929709 TTTTATTTTAGTTTC
1 TTTTATTTTAGTATC
60929724 TTTTATTTTAGTATC
1 TTTTATTTTAGTATC
60929739 -TTTATTTT
1 TTTTATTTT
60929747 TTTTGTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTTATTTTAGTATC
Found at i:60931374 original size:16 final size:18
Alignment explanation
Indices: 60931335--60931380 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
60931325 TTTATTTTTA
*
60931335 TTTTATGTTTATGCTTAT
1 TTTTATTTTTATGCTTAT
*
60931353 TGTTATTTTTA-G-TTAT
1 TTTTATTTTTATGCTTAT
*
60931369 TTTTATTGTTAT
1 TTTTATTTTTAT
60931381 TTTATTAGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 13 0.57
17 1 0.04
18 9 0.39
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.70
Consensus pattern (18 bp):
TTTTATTTTTATGCTTAT
Found at i:60931381 original size:12 final size:12
Alignment explanation
Indices: 60931323--60931383 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
60931313 TGAGTTTATT
*
60931323 TTTTTATTTTTA
1 TTTTTATTGTTA
60931335 -TTTTA-TGTTTA
1 TTTTTATTG-TTA
**
60931346 TGCTTATTGTTA
1 TTTTTATTGTTA
60931358 TTTTTA--GTTA
1 TTTTTATTGTTA
60931368 TTTTTATTGTTA
1 TTTTTATTGTTA
60931380 TTTT
1 TTTT
60931384 ATTAGACTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 11 0.28
11 8 0.21
12 18 0.46
13 2 0.05
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.74
Consensus pattern (12 bp):
TTTTTATTGTTA
Found at i:60935447 original size:42 final size:42
Alignment explanation
Indices: 60935370--60935449 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
60935360 TGCAGGGGGC
*
60935370 ACACGGCTAGACTACACGCCCATGTGCATGGCCGTGTGTCAT
1 ACACGGCTAGACTACACGCCCATGTGCATGCCCGTGTGTCAT
* *
60935412 ACACGGCTAAGAC-ACACGCCCGTGT-CTCTGCCCGTGTG
1 ACACGGCT-AGACTACACGCCCATGTGC-ATGCCCGTGTG
60935450 GACGAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.03
42 28 0.85
43 4 0.12
ACGTcount: A:0.20, C:0.34, G:0.26, T:0.20
Consensus pattern (42 bp):
ACACGGCTAGACTACACGCCCATGTGCATGCCCGTGTGTCAT
Found at i:60936212 original size:33 final size:33
Alignment explanation
Indices: 60936175--60936321 Score: 100
Period size: 33 Copynumber: 4.4 Consensus size: 33
60936165 ATAACCTAGT
*
60936175 TATGGTCTTATCATTAGAA-TGCCATAGCCCAAC
1 TATGGTCTTA-CATTAAAACTGCCATAGCCCAAC
* * * *
60936208 TATGGTCTTACTTATAAATACTGTCATGGTCCAAC
1 TATGGTCTTACAT-TAAA-ACTGCCATAGCCCAAC
* * * * * * * **
60936243 CATAGTCTTACGTTCAAAGTGTCATAACCCAGT
1 TATGGTCTTACATTAAAACTGCCATAGCCCAAC
* *
60936276 TATGGTCTTTTCATTAAAA-TGCCATAGCCCAGC
1 TATGGTC-TTACATTAAAACTGCCATAGCCCAAC
60936309 TATGGTCTTACAT
1 TATGGTCTTACAT
60936322 ATGAACATTG
Statistics
Matches: 86, Mismatches: 24, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
32 7 0.08
33 46 0.53
34 12 0.14
35 21 0.24
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (33 bp):
TATGGTCTTACATTAAAACTGCCATAGCCCAAC
Found at i:60936278 original size:101 final size:101
Alignment explanation
Indices: 60936095--60936353 Score: 301
Period size: 101 Copynumber: 2.6 Consensus size: 101
60936085 GTTTTCTTTG
* * * * * * * *
60936095 TGCCATAGTCCAACTATGGTCTTACAGAT--GCATTGCCATGG-CCTAGCCATGGTCTTACATTC
1 TGCCATAGCCCAACTATGGTCTTACATATAAACACTGTCATGGTCC-AACCATAGTCTTACGTTC
** * *
60936157 GTAGTG-CTATAACCTAGTTATGGTCTTATCATTAGAA
65 AAAGTGTC-ATAACCCAGTTATGGTCTTATCATTAAAA
* *
60936194 TGCCATAGCCCAACTATGGTCTTACTTATAAATACTGTCATGGTCCAACCATAGTCTTACGTTCA
1 TGCCATAGCCCAACTATGGTCTTACATATAAACACTGTCATGGTCCAACCATAGTCTTACGTTCA
*
60936259 AAGTGTCATAACCCAGTTATGGTCTTTTCATTAAAA
66 AAGTGTCATAACCCAGTTATGGTCTTATCATTAAAA
* * * *
60936295 TGCCATAGCCCAGCTATGGTCTTACATATGAACATTGTCATGGTCCAACCATGGTCTTA
1 TGCCATAGCCCAACTATGGTCTTACATATAAACACTGTCATGGTCCAACCATAGTCTTA
60936354 TCCGTCAATT
Statistics
Matches: 135, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
99 26 0.19
101 106 0.79
102 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (101 bp):
TGCCATAGCCCAACTATGGTCTTACATATAAACACTGTCATGGTCCAACCATAGTCTTACGTTCA
AAGTGTCATAACCCAGTTATGGTCTTATCATTAAAA
Found at i:60937691 original size:21 final size:20
Alignment explanation
Indices: 60937667--60937719 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
60937657 ATAACAAAAT
60937667 AAAATAAAATGATAATATGTA-
1 AAAATAAAATGAT-ATATG-AG
60937688 AAAATGAAACAATGATATATGAG
1 AAAAT--AA-AATGATATATGAG
60937711 AAAATAAAA
1 AAAATAAAA
60937720 ATATCATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
20 2 0.07
21 7 0.25
22 1 0.04
23 12 0.43
24 6 0.21
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.23
Consensus pattern (20 bp):
AAAATAAAATGATATATGAG
Found at i:60937875 original size:3 final size:3
Alignment explanation
Indices: 60937867--60937894 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
60937857 ATGAAAAATA
60937867 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
60937895 GCAAAATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:60941128 original size:43 final size:43
Alignment explanation
Indices: 60941067--60941154 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
60941057 CTCGTTTGGT
60941067 AAAAGTAGGGACTAAGCACAGAATTTATTACGACTAACACGGA
1 AAAAGTAGGGACTAAGCACAGAATTTATTACGACTAACACGGA
* *
60941110 AAAAGTAGGGACTAAGCACAGAATTTATTATGACTAACGCGGA
1 AAAAGTAGGGACTAAGCACAGAATTTATTACGACTAACACGGA
60941153 AA
1 AA
60941155 GAGTCACCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (43 bp):
AAAAGTAGGGACTAAGCACAGAATTTATTACGACTAACACGGA
Found at i:60941584 original size:14 final size:15
Alignment explanation
Indices: 60941567--60941595 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60941557 AAATTTTTTT
60941567 ATATAAAAA-TAATA
1 ATATAAAAATTAATA
60941581 ATATAAAAATTAATA
1 ATATAAAAATTAATA
60941596 CAAGCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAAAAATTAATA
Found at i:60942107 original size:15 final size:15
Alignment explanation
Indices: 60942087--60942116 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
60942077 TTTGAGAAAG
60942087 ATTAAAATTGTAATT
1 ATTAAAATTGTAATT
60942102 ATTAAAATTGTAATT
1 ATTAAAATTGTAATT
60942117 TTATCATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
ATTAAAATTGTAATT
Found at i:60954011 original size:39 final size:39
Alignment explanation
Indices: 60953788--60954002 Score: 376
Period size: 39 Copynumber: 5.5 Consensus size: 39
60953778 TGGCATCAAG
60953788 GACTCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACC
1 GACTCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACC
60953827 GACTCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACC
1 GACTCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACC
* *
60953866 GACTCCGGTCCAAGCCCTGGAACGGGAAATAAGTTTACT
1 GACTCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACC
60953905 GACTCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACC
1 GACTCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACC
* *
60953944 GACTCCGGTCCAAGCCCTGGAACGGGAAATAGGTTTACC
1 GACTCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACC
* *
60953983 GACTCCGGCCCGAGCCCTGG
1 GACTCCGGACCAAGCCCTGG
60954003 TGTTGGAAAC
Statistics
Matches: 168, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 168 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.16
Consensus pattern (39 bp):
GACTCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACC
Found at i:60961198 original size:29 final size:29
Alignment explanation
Indices: 60961165--60961228 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
60961155 TAGTAAAGGT
60961165 AAAATTAT-ATTT-TCTCCTTAAAAATTATA
1 AAAATT-TGATTTATCT-CTTAAAAATTATA
*
60961194 AAAATTTGATTTAATCTTTTAAAAATTATA
1 AAAATTTGATTT-ATCTCTTAAAAATTATA
60961224 AAAAT
1 AAAAT
60961229 ATAGGATACT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 1 0.03
29 10 0.32
30 17 0.55
31 3 0.10
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (29 bp):
AAAATTTGATTTATCTCTTAAAAATTATA
Found at i:60963448 original size:21 final size:22
Alignment explanation
Indices: 60963411--60963461 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 22
60963401 AAAATAGACT
60963411 TTTAGCGGTGTTTTTTTAGGCA
1 TTTAGCGGTGTTTTTTTAGGCA
*
60963433 TTTAGCGGTG-TTTTTTAGGCC
1 TTTAGCGGTGTTTTTTTAGGCA
60963454 TTTAGCGG
1 TTTAGCGG
60963462 CGCTTTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.12, C:0.12, G:0.29, T:0.47
Consensus pattern (22 bp):
TTTAGCGGTGTTTTTTTAGGCA
Found at i:60963468 original size:21 final size:21
Alignment explanation
Indices: 60963423--60963468 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
60963413 TAGCGGTGTT
* *
60963423 TTTTTAGGCATTTAGCGGTGT
1 TTTTTAGGCATTTAGCGGCGC
*
60963444 TTTTTAGGCCTTTAGCGGCGC
1 TTTTTAGGCATTTAGCGGCGC
60963465 TTTT
1 TTTT
60963469 CAGCGCCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.15, G:0.26, T:0.48
Consensus pattern (21 bp):
TTTTTAGGCATTTAGCGGCGC
Found at i:60963603 original size:43 final size:43
Alignment explanation
Indices: 60963556--60963684 Score: 195
Period size: 43 Copynumber: 3.0 Consensus size: 43
60963546 TGAAAAAAGT
*
60963556 TGCTAAAGATCATGACCTTTAGTGACGCTTTTGTCACAAACGC
1 TGCTAAAGATCATGACCTTTAGCGACGCTTTTGTCACAAACGC
*
60963599 TGCTAAAGATCATGACCTTTAGCGACGCTTTTGTCAAAAACGC
1 TGCTAAAGATCATGACCTTTAGCGACGCTTTTGTCACAAACGC
* * * *
60963642 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTTATCACAAACG
1 TGCTAAAGATCATGACCTTTAGCGACGC-TTTTGTCACAAACG
60963685 ACGCTATAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
43 66 0.85
44 12 0.15
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
TGCTAAAGATCATGACCTTTAGCGACGCTTTTGTCACAAACGC
Found at i:60963708 original size:43 final size:43
Alignment explanation
Indices: 60963557--60963714 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
60963547 GAAAAAAGTT
* * * * * *
60963557 GCTAAAGATCATGACCTTTAGTGACGC-TTTTGTCACAAACG-C
1 GCTAAAGAACA-GAACTTTAGCGGCGCTTTTTATCAAAAACGAC
* * * * *
60963599 TGCTAAAGATCATGACCTTTAGCGACGC-TTTTGTCAAAAACGCC
1 -GCTAAAGAACA-GAACTTTAGCGGCGCTTTTTATCAAAAACGAC
* *
60963643 GCTAAAGAACATGACCTTTAGCGGCGCTTTTTATCACAAACGAC
1 GCTAAAGAACA-GAACTTTAGCGGCGCTTTTTATCAAAAACGAC
*
60963687 GCTATAGAACA-AACTTCTAGCGGCGCTT
1 GCTAAAGAACAGAACTT-TAGCGGCGCTT
60963715 CTCGCAAAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
42 4 0.04
43 75 0.73
44 24 0.23
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GCTAAAGAACAGAACTTTAGCGGCGCTTTTTATCAAAAACGAC
Found at i:60963708 original size:86 final size:85
Alignment explanation
Indices: 60963557--60963746 Score: 208
Period size: 86 Copynumber: 2.2 Consensus size: 85
60963547 GAAAAAAGTT
* * * * *
60963557 GCTAAAGATCATGACCTTTAGTGACGCTTTTGTCACAAACGCTGCTAAAGATCATGACCTTTAGC
1 GCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAACGCTGCTAAAGAACA-GAACTTTAGC
*
60963622 GACGCTT-TTGTCAAAAACGCC
65 GACGCTTCTCG-CAAAAACGCC
* *
60963643 GCTAAAGAACATGACCTTTAGCGGCGCTTTTTATCACAAACGAC-GCTATAGAACA-AACTTCTA
1 GCTAAAGAACATGACCTTTAGCGACGC-TTTTATCACAAACG-CTGCTAAAGAACAGAACTT-TA
*
60963706 GCGGCGCTTCTCGCAAAAACGCC
63 GCGACGCTTCTCGCAAAAACGCC
* *
60963729 ACTAAA-AACATAACCTTT
1 GCTAAAGAACATGACCTTT
60963747 TAAAAAAATT
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
85 15 0.17
86 49 0.55
87 24 0.27
88 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (85 bp):
GCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAACGCTGCTAAAGAACAGAACTTTAGCG
ACGCTTCTCGCAAAAACGCC
Found at i:60964164 original size:43 final size:43
Alignment explanation
Indices: 60964098--60964182 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
60964088 CACATTGCAA
* * * *
60964098 GGTAATAAAAAATGCAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
* * *
60964141 GGTAATAAAAGATATAATACATTTACTTAATGAAGGAAATCT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCT
60964183 AACAATGGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:60967620 original size:15 final size:15
Alignment explanation
Indices: 60967597--60967660 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
60967587 GAAATGTAGA
60967597 AACAATAATAATAAT
1 AACAATAATAATAAT
* *
60967612 AACATTAATAATAAC
1 AACAATAATAATAAT
* *
60967627 AGCAATAA-AACAAT
1 AACAATAATAATAAT
60967641 GAACTAAATAATAATAAT
1 -AAC--AATAATAATAAT
60967659 AA
1 AA
60967661 GGAAAAAGGG
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
14 4 0.11
15 21 0.57
17 7 0.19
18 5 0.14
ACGTcount: A:0.64, C:0.09, G:0.03, T:0.23
Consensus pattern (15 bp):
AACAATAATAATAAT
Found at i:60969123 original size:50 final size:49
Alignment explanation
Indices: 60969067--60969338 Score: 151
Period size: 49 Copynumber: 5.6 Consensus size: 49
60969057 CGCCAATGAT
* * *
60969067 GTGAGATTCGCTGTTGTAGCTTCAATCTATTTGACTACAATGTTGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCT-TTTAACTACAATGTCGGGGAA
* * * ** ** **
60969117 GCGAGATTCGCCATCGTAGCTTCAATCTGTTCCACTACACCG-CAAGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCT-TTTAACTACAATGTCGGGGAA
* * * * * *
60969166 ATGAGATTTGCCGTTATGGCTTCAATCTTTTAATTGCAATGTCGGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTTTTAACTACAATGTCGGGGAA
* * *** * **
60969215 GTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCTGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCT-TTTAACTACAAT-GTCGGGGAA
* * * ** * *
60969264 ATAAGATTCGCCGTTGTGGCTTTGATCTTTTAAATTGCAA--T-GGGGAA
1 GTGAGATTCGCCGTTGTAGCTTCAATCTTTT-AACTACAATGTCGGGGAA
*
60969311 GTGAGACTCGCCGTTGTAGCTTCAATCT
1 GTGAGATTCGCCGTTGTAGCTTCAATCT
60969339 GTTCCGCTGC
Statistics
Matches: 158, Mismatches: 58, Indels: 15
0.68 0.25 0.06
Matches are distributed among these distances:
47 26 0.16
48 9 0.06
49 83 0.53
50 40 0.25
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (49 bp):
GTGAGATTCGCCGTTGTAGCTTCAATCTTTTAACTACAATGTCGGGGAA
Found at i:60969236 original size:98 final size:98
Alignment explanation
Indices: 60968966--60969400 Score: 396
Period size: 96 Copynumber: 4.4 Consensus size: 98
60968956 CCCGTTGAGA
* * ** * *** *
60968966 AAATAAGATTCGCCGTTGCGGCTTCAATCTTCT-AGCTGCAATGTCGGGAAAACA-ATGTTCGCC
1 AAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTGGGGAAGTGAGA--CTCGCC
* * * *
60969029 ATTGTAGCTTCAACCTGTTCCACTGTATCGCCAATG
64 GTTGTAGCTTCAATCTGTTCCACTGCATCG-CAAGG
** * * * * * * * *
60969065 ATGTGAGATTCGCTGTTGTAGCTTCAATCTATTT-GACTACAATGTTGGGGAAGCGAGATTCGCC
1 AAATAAGATTCGCCGTTGTGGCTTCAATCT-TTTAAATTGCAATG-TGGGGAAGTGAGACTCGCC
* * * *
60969129 ATCGTAGCTTCAATCTGTTCCACTACACCGCAAGG
64 GTTGTAGCTTCAATCTGTTCCACTGCATCGCAAGG
* * * *
60969164 AAATGAGATTTGCCGTTATGGCTTCAATCTTTT-AATTGCAATGTCGGGGAAGTGAGACTCGCTG
1 AAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGT-GGGGAAGTGAGACTCGCCG
* **
60969228 TTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGG
65 TTGTAGCTTCAATCTGTTCCACTGCATCGCAAGG
**
60969262 AAATAAGATTCGCCGTTGTGGCTTTGATCTTTTAAATTGCAA--TGGGGAAGTGAGACTCGCCGT
1 AAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTGGGGAAGTGAGACTCGCCGT
* **
60969325 TGTAGCTTCAATCTGTTCCGCTGCATCGCCTGG
66 TGTAGCTTCAATCTGTTCCACTGCATCGCAAGG
* * *
60969358 AAGTAAGATTCGCCATTGTGGCTTCGATCTTTTAAATTGCAAT
1 AAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAAT
60969401 CTATGGTTAC
Statistics
Matches: 282, Mismatches: 48, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
96 91 0.32
97 2 0.01
98 81 0.29
99 60 0.21
100 40 0.14
101 7 0.02
102 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (98 bp):
AAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTGGGGAAGTGAGACTCGCCGT
TGTAGCTTCAATCTGTTCCACTGCATCGCAAGG
Found at i:60969371 original size:49 final size:49
Alignment explanation
Indices: 60969211--60969387 Score: 162
Period size: 49 Copynumber: 3.7 Consensus size: 49
60969201 GCAATGTCGG
* *
60969211 GGAAGTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
1 GGAAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * * ** * **** *
60969260 GGAAATAAGATTCGCCGTTGTGGCTTTGATCTTTTAAATTGCAAT-G--G
1 GGAAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT
*
60969307 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
1 GGAAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * * *
60969356 GGAAGTAAGATTCGCCATTGTGGCTTCGATCT
1 GGAAGTAAGACTCGCCGTTGTAGCTTCAATCT
60969388 TTTAAATTGC
Statistics
Matches: 94, Mismatches: 30, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
46 2 0.02
47 32 0.34
49 58 0.62
50 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.32
Consensus pattern (49 bp):
GGAAGTAAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
Found at i:60982077 original size:12 final size:12
Alignment explanation
Indices: 60982057--60982117 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
60982047 GAATTGTAGA
60982057 AACAATAATAAT
1 AACAATAATAAT
*
60982069 AACATTAATAAT
1 AACAATAATAAT
**
60982081 AACAGCAATAA-
1 AACAATAATAAT
60982092 AACAATGAACTAAAT
1 AACAAT-AA-T-AAT
*
60982107 AATAATAATAA
1 AACAATAATAA
60982118 GAAAAAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 4 0.10
12 24 0.62
13 2 0.05
14 4 0.10
15 5 0.13
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (12 bp):
AACAATAATAAT
Found at i:60982862 original size:14 final size:13
Alignment explanation
Indices: 60982832--60982869 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
60982822 ATGTATGTAC
*
60982832 AAAAAA-GAAGAT
1 AAAAAACGAAAAT
60982844 GAAAAAACGAAAAT
1 -AAAAAACGAAAAT
60982858 AAAAAACGAAAA
1 AAAAAACGAAAA
60982870 GAATAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.76, C:0.05, G:0.13, T:0.05
Consensus pattern (13 bp):
AAAAAACGAAAAT
Found at i:60987985 original size:20 final size:20
Alignment explanation
Indices: 60987864--60987983 Score: 98
Period size: 20 Copynumber: 6.0 Consensus size: 20
60987854 CTTGTACGAG
* *
60987864 ATTTACACTTCGGTGCCCTT
1 ATTTGCACTTCGGTGCCCCT
*
60987884 ATTTGCACTTTGGTGCCCCT
1 ATTTGCACTTCGGTGCCCCT
* * * * *
60987904 ATATACACTTCGATGTCTCT
1 ATTTGCACTTCGGTGCCCCT
* *
60987924 ATTAGCACTACGGTGCCCCT
1 ATTTGCACTTCGGTGCCCCT
* *
60987944 GTTTGCACATT-TGTGCCCCT
1 ATTTGCAC-TTCGGTGCCCCT
* *
60987964 GTCTGCACTTCGGTGCCCCT
1 ATTTGCACTTCGGTGCCCCT
60987984 GTTATGCATT
Statistics
Matches: 76, Mismatches: 22, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
19 2 0.03
20 73 0.96
21 1 0.01
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTTGCACTTCGGTGCCCCT
Found at i:60993760 original size:3 final size:3
Alignment explanation
Indices: 60993754--60993791 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
60993744 CAACAACAAC
60993754 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
60993792 TAAGGTTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:60998262 original size:16 final size:14
Alignment explanation
Indices: 60998232--60998265 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
60998222 AAACATTTAT
60998232 GAAAGAAAAGAAAG
1 GAAAGAAAAGAAAG
60998246 GAAAGTAAAAGGAAAG
1 GAAAG-AAAA-GAAAG
60998262 GAAA
1 GAAA
60998266 AGAAGGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 4 0.22
16 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (14 bp):
GAAAGAAAAGAAAG
Found at i:61003622 original size:181 final size:181
Alignment explanation
Indices: 61003312--61003642 Score: 554
Period size: 181 Copynumber: 1.8 Consensus size: 181
61003302 ACTTGTTTTT
* * *
61003312 GCTTTCCCTTTTGGTCGTTGGAAAAAGTTTGGACAACACGTTAGAATCTGAGTGGTTTTCCAGAA
1 GCTTTACCTTTTGGTCGTTGGAAAAAGTTTGGACAACACGTCAGAATCTGAGTGGTTTCCCAGAA
* * * *
61003377 ATTAACAGTGTCCATCTATCTTCCTTCCTATTTCAGGCCCAATTTCTTGGCAGGTTTCTTGATAT
66 ATTAACAGTGTCCACCTATCTTCCTTCCTATTGCACGCCCAATTTCTAGGCAGGTTTCTTGATAT
61003442 GTCATATTGATTGCCCAATTCCACTTAGATTGATCATTGTTTTCATGATAA
131 GTCATATTGATTGCCCAATTCCACTTAGATTGATCATTGTTTTCATGATAA
* *
61003493 GCTTTACCTTTTGGTCGTTGGAAAAAGTTTGGTCAACACGTCAGAATCTGAGTGGTTTCCCTGAA
1 GCTTTACCTTTTGGTCGTTGGAAAAAGTTTGGACAACACGTCAGAATCTGAGTGGTTTCCCAGAA
** *
61003558 ATTAACTTTGTCCACCTATCTTCCTTCCTATTGCACGCCCAATTTCTAGGCAGGTTTGTTGATAT
66 ATTAACAGTGTCCACCTATCTTCCTTCCTATTGCACGCCCAATTTCTAGGCAGGTTTCTTGATAT
61003623 GTCATATTGATTGCCCAATT
131 GTCATATTGATTGCCCAATT
61003643 GATCATTGTT
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
181 138 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (181 bp):
GCTTTACCTTTTGGTCGTTGGAAAAAGTTTGGACAACACGTCAGAATCTGAGTGGTTTCCCAGAA
ATTAACAGTGTCCACCTATCTTCCTTCCTATTGCACGCCCAATTTCTAGGCAGGTTTCTTGATAT
GTCATATTGATTGCCCAATTCCACTTAGATTGATCATTGTTTTCATGATAA
Found at i:61007368 original size:71 final size:71
Alignment explanation
Indices: 61007222--61007404 Score: 204
Period size: 71 Copynumber: 2.6 Consensus size: 71
61007212 CTAATGATTG
* * * * * * * **
61007222 AGATCCAACATATGTTACGGATTCTTGACAGCTTGAGCGAGTAACATCAAATCTTTCTTAATTGA
1 AGATCCAGCATATGTTGCGGATTCTCGACAACTTGAGTGAGCAACATCAAATCTTTATTAATCAA
* *
61007287 TGGTTG
66 TGGCTA
* * *
61007293 AGATCCAGCACATGTTGTGGATTCTCGACAACTTGAGTGAGCAACATCAAATCTTTATTTATCAA
1 AGATCCAGCATATGTTGCGGATTCTCGACAACTTGAGTGAGCAACATCAAATCTTTATTAATCAA
61007358 TGGCTA
66 TGGCTA
* * * *
61007364 AGATCCAGTATATGTTGCGAATTCCCGACTACTTGAGTGAG
1 AGATCCAGCATATGTTGCGGATTCTCGACAACTTGAGTGAG
61007405 TAGCACCAAA
Statistics
Matches: 92, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (71 bp):
AGATCCAGCATATGTTGCGGATTCTCGACAACTTGAGTGAGCAACATCAAATCTTTATTAATCAA
TGGCTA
Found at i:61017560 original size:52 final size:52
Alignment explanation
Indices: 61017484--61017597 Score: 210
Period size: 52 Copynumber: 2.2 Consensus size: 52
61017474 TTTGAGTACT
*
61017484 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
61017536 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATATTTA
1 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
61017588 TCTGATCAAG
1 TCTGATCAAG
61017598 AAACAAAGTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (52 bp):
TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:61017626 original size:37 final size:37
Alignment explanation
Indices: 61017585--61017741 Score: 287
Period size: 37 Copynumber: 4.2 Consensus size: 37
61017575 TCGGCTATAT
61017585 TTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
1 TTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
*
61017622 TTATCTGATCAAGAGACAAAGTGATAAGTGGCTACAC
1 TTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
61017659 TTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
1 TTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
* *
61017696 TTATCTAATCAAGAAACAAAGTGATAGGTGGCTACAC
1 TTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
61017733 TTATCTGAT
1 TTATCTGAT
61017742 TAGGGACAAG
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 115 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (37 bp):
TTATCTGATCAAGAAACAAAGTGATAAGTGGCTACAC
Found at i:61027155 original size:4 final size:4
Alignment explanation
Indices: 61027148--61027184 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
61027138 TTCTACCTTC
*
61027148 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT TTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
61027185 CTTTATCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:61036230 original size:40 final size:43
Alignment explanation
Indices: 61036176--61036267 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 43
61036166 ATACGTATAT
*
61036176 ATATTTTTTATAACTTAAAACTATATAT-ATACATTTATTTT-
1 ATATTTTTTATAACTTAAAACTATATATAATACATATATTTTC
* *
61036217 TTATTTTTT-TAACTTAAAATTATATATACATACATATATTTTC
1 ATATTTTTTATAACTTAAAACTATATATA-ATACATATATTTTC
61036260 ATATTTTT
1 ATATTTTT
61036268 CTTTTTCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 17 0.39
41 8 0.18
42 12 0.27
43 7 0.16
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (43 bp):
ATATTTTTTATAACTTAAAACTATATATAATACATATATTTTC
Found at i:61036243 original size:42 final size:42
Alignment explanation
Indices: 61036176--61036267 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
61036166 ATACGTATAT
* * *
61036176 ATATTTTTTATAACTTAAAACTATATATATACATTTATTTT-
1 ATATTTTTTATAACTTAAAAATATATACATACATATATTTTC
*
61036217 TTATTTTTT-TAACTTAAAATTATATATACATACATATATTTTC
1 ATATTTTTTATAACTTAAAA--ATATATACATACATATATTTTC
61036260 ATATTTTT
1 ATATTTTT
61036268 CTTTTTCTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
40 10 0.23
41 8 0.19
42 18 0.42
43 7 0.16
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (42 bp):
ATATTTTTTATAACTTAAAAATATATACATACATATATTTTC
Found at i:61036421 original size:16 final size:17
Alignment explanation
Indices: 61036400--61036438 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
61036390 TTGTCCTTTT
61036400 TTATTTTATT-TATT-TA
1 TTATTTTATTGT-TTGTA
61036416 TTATTTTATTGTTTGTA
1 TTATTTTATTGTTTGTA
61036433 TTATTT
1 TTATTT
61036439 ATGTTTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTATTTTATTGTTTGTA
Found at i:61039351 original size:27 final size:27
Alignment explanation
Indices: 61039313--61039387 Score: 109
Period size: 26 Copynumber: 2.8 Consensus size: 27
61039303 TAGTATTGGC
61039313 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
61039340 GCCTACCTGGGAGGCGCC-ATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
61039366 GCC-ATTCTGAGAGGCGCCAATG
1 GCCTA-TCTGGGAGGCGCCAATG
61039388 CTCTGATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 1 0.02
26 22 0.51
27 20 0.47
ACGTcount: A:0.16, C:0.25, G:0.39, T:0.20
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:61039518 original size:39 final size:38
Alignment explanation
Indices: 61039464--61039546 Score: 139
Period size: 39 Copynumber: 2.2 Consensus size: 38
61039454 AAAAAATCAG
61039464 TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTTAA-TTTTT
* *
61039503 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTT
61039541 TTATAA
1 TTATAA
61039547 ACTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 11 0.26
39 31 0.74
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTT
Found at i:61039656 original size:60 final size:60
Alignment explanation
Indices: 61039580--61039701 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
61039570 ATACTAAACT
* * * * *
61039580 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAA-AAATTAAATTATAAAATAATTAC
* * *
61039640 AAACACAAAAATTTATAACATAATCCCAAATTACTAACAATTTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAAAAATTAAATTATAAAATAATTAC
61039700 AA
1 AA
61039702 TATTCATACA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 8 0.15
60 45 0.85
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCCAAATTACTAAAAATTAAATTATAAAATAATTAC
Found at i:61039701 original size:22 final size:21
Alignment explanation
Indices: 61039676--61040027 Score: 169
Period size: 22 Copynumber: 15.8 Consensus size: 21
61039666 CAAATTACTA
*
61039676 ACAAT-TTAATTATAAAATAATT
1 ACAATATTAA-TACAAAA-AATT
*
61039698 ACAATATTCATACAAAAAATT
1 ACAATATTAATACAAAAAATT
*** *
61039719 ACAATATTACAATATATCCCGACATT
1 ACAATATT---A-ATA-CAAAAAATT
*
61039745 ACAATATTCATAC--AAAATT
1 ACAATATTAATACAAAAAATT
61039764 ACAATATTACAATATTCATACAAAATT
1 ACAATATT--AATA--CA-A-AAAATT
61039791 ACAATATTACAATATTCATACAAAAAAATT
1 ACAATATT--AATA--C--A-AAAA--ATT
* *
61039821 GCAATATTCATAC--AAAATT
1 ACAATATTAATACAAAAAATT
* * *
61039840 ATAATATTCATTCAAAAAAATT
1 ACAATATTAATAC-AAAAAATT
* **
61039862 AAAATATTCGTACAAAAAAATT
1 ACAATATTAATAC-AAAAAATT
* *
61039884 AAAATATTCATAC--AAAATT
1 ACAATATTAATACAAAAAATT
*
61039903 ACAATATTCATACAAAAAAATT
1 ACAATATTAATAC-AAAAAATT
* *
61039925 GCAATATTCATACAAAAAAATT
1 ACAATATTAATAC-AAAAAATT
* * *
61039947 GCAATATTCACACAAAAAAATT
1 ACAATATTAATAC-AAAAAATT
* *
61039969 AGAATATTCATACAAAAAATT
1 ACAATATTAATACAAAAAATT
*
61039990 ACAATATTCATACAAAAAATT
1 ACAATATTAATACAAAAAATT
*
61040011 ACAATATTCATACAAAA
1 ACAATATTAATACAAAA
61040028 TACTAATCCA
Statistics
Matches: 278, Mismatches: 28, Indels: 49
0.78 0.08 0.14
Matches are distributed among these distances:
19 43 0.15
21 64 0.23
22 109 0.39
23 4 0.01
25 3 0.01
26 14 0.05
27 23 0.08
28 6 0.02
29 2 0.01
30 10 0.04
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (21 bp):
ACAATATTAATACAAAAAATT
Found at i:61039729 original size:8 final size:8
Alignment explanation
Indices: 61039716--61039806 Score: 65
Period size: 8 Copynumber: 10.4 Consensus size: 8
61039706 CATACAAAAA
61039716 ATTACAAT
1 ATTACAAT
61039724 ATTACAAT
1 ATTACAAT
* * *
61039732 ATATCCCGAC
1 AT-T-ACAAT
61039742 ATTACAAT
1 ATTACAAT
*
61039750 ATTCATACAAA
1 A-T--TACAAT
61039761 ATTACAAT
1 ATTACAAT
61039769 ATTACAAT
1 ATTACAAT
*
61039777 ATTCATACAAA
1 A-T--TACAAT
61039788 ATTACAAT
1 ATTACAAT
61039796 ATTACAAT
1 ATTACAAT
61039804 ATT
1 ATT
61039807 CATACAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
8 43 0.66
9 4 0.06
10 6 0.09
11 12 0.18
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:61039778 original size:27 final size:27
Alignment explanation
Indices: 61039742--61039847 Score: 159
Period size: 27 Copynumber: 4.1 Consensus size: 27
61039732 ATATCCCGAC
61039742 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
61039769 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
61039796 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* *
61039818 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
61039845 ATT
1 ATT
61039848 CATTCAAAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
22 15 0.21
23 5 0.07
24 1 0.01
25 1 0.01
26 5 0.07
27 46 0.63
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:61039835 original size:41 final size:42
Alignment explanation
Indices: 61039796--61040149 Score: 315
Period size: 41 Copynumber: 8.5 Consensus size: 42
61039786 AAATTACAAT
*
61039796 ATTACAATATTCATACAAAAAAATTGCAATATTCATAC-AAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAA
* * * *
61039837 ATTATAATATTCATTCAAAAAAATTAAAATATTCGTACAAAAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAC--AAAA
*
61039881 ATTAAAATATTCATAC---AAAATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAC--AAAA
* * *
61039922 ATTGCAATATTCATACAAAAAAATTGCAATATTCACACAAAAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAC--AAAA
*
61039966 ATTAGAATATTCATAC-AAAAAATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAC-AAAA
* * * *
61040008 ATTACAATATTCATAC---AAAA-TACTA-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAAATTACAATATTC-ATAC-AAAA
* * * *
61040047 A-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-AAC
1 ATTACAATA-TTCA-TACAAAAAAATTACAATATTCATACAAAA
61040088 ATTACAATATTCAT--AAAAAAATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAAATTACAATATTCATAC-AAAA
*
61040129 AGTTAGAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
61040150 TTCTAATCTA
Statistics
Matches: 257, Mismatches: 35, Indels: 39
0.78 0.11 0.12
Matches are distributed among these distances:
37 1 0.00
38 11 0.04
39 34 0.13
40 4 0.02
41 76 0.30
42 43 0.17
43 27 0.11
44 61 0.24
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (42 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAA
Done.