Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 43 of 402
Found at i:8483119 original size:58 final size:58
Alignment explanation
Indices: 8483057--8483171 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
8483047 TAGTTTATAA
**
8483057 TTATTTATTATTTTAGCTGTATTTTTATATATATTTGTGTTAGCCTTGTTTATTCATG
1 TTATTTATTATTTTAGCTGTATTTTTATATATATTCATGTTAGCCTTGTTTATTCATG
*
8483115 TTATTTATTATTTTAGCTGTATTTTTATGTATATTCATGTTAGCCTTGTTTATTCAT
1 TTATTTATTATTTTAGCTGTATTTTTATATATATTCATGTTAGCCTTGTTTATTCAT
8483172 ATATATTCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.60
Consensus pattern (58 bp):
TTATTTATTATTTTAGCTGTATTTTTATATATATTCATGTTAGCCTTGTTTATTCATG
Found at i:8483182 original size:29 final size:29
Alignment explanation
Indices: 8483083--8483200 Score: 91
Period size: 29 Copynumber: 4.1 Consensus size: 29
8483073 CTGTATTTTT
**
8483083 ATATATATTTGTGTTAGCCTTGTTTATTC
1 ATATATATTCATGTTAGCCTTGTTTATTC
* * *
8483112 ATGTTATTTATT-ATTTTAG-C-TGTATT-TTT
1 A---TATATATTCATGTTAGCCTTGT-TTATTC
*
8483141 ATGTATATTCATGTTAGCCTTGTTTATTC
1 ATATATATTCATGTTAGCCTTGTTTATTC
* * *
8483170 ATATATATTCATGTTAGTCATATTTATTC
1 ATATATATTCATGTTAGCCTTGTTTATTC
8483199 AT
1 AT
8483201 GTATGTCATA
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
26 6 0.09
27 6 0.09
28 3 0.04
29 39 0.57
30 3 0.04
31 5 0.07
32 7 0.10
ACGTcount: A:0.24, C:0.09, G:0.11, T:0.56
Consensus pattern (29 bp):
ATATATATTCATGTTAGCCTTGTTTATTC
Found at i:8483203 original size:58 final size:56
Alignment explanation
Indices: 8483056--8483204 Score: 149
Period size: 58 Copynumber: 2.6 Consensus size: 56
8483046 ATAGTTTATA
* * * * **
8483056 ATTATTTATTATTTTAGCTGTATTTTTATATATATTTGTGTTAGCCTTGTTTATTC
1 ATTATATATTATGTTAGCTATATTTTTATGTATATTCATGTTAGCCTTGTTTATTC
* * *
8483112 ATGTTATTTATTATTTTAGCTGTATTTTTATGTATATTCATGTTAGCCTTGTTTATTC
1 A--TTATATATTATGTTAGCTATATTTTTATGTATATTCATGTTAGCCTTGTTTATTC
8483170 A-TATATATTCATGTTAG-TCATATTTATTCATGTAT
1 ATTATATATT-ATGTTAGCT-ATATTT-TT-ATGTAT
8483205 GTCATAATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
55 8 0.10
56 12 0.15
57 2 0.02
58 59 0.73
ACGTcount: A:0.23, C:0.08, G:0.11, T:0.58
Consensus pattern (56 bp):
ATTATATATTATGTTAGCTATATTTTTATGTATATTCATGTTAGCCTTGTTTATTC
Found at i:8483208 original size:19 final size:19
Alignment explanation
Indices: 8483168--8483216 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
8483158 CCTTGTTTAT
*
8483168 TCATATATATTCATGTTAG
1 TCATATTTATTCATGTTAG
8483187 TCATATTTATTCATG-TATG
1 TCATATTTATTCATGTTA-G
*
8483206 TCATAATTATT
1 TCATATTTATT
8483217 TTAGAGATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (19 bp):
TCATATTTATTCATGTTAG
Found at i:8485927 original size:20 final size:20
Alignment explanation
Indices: 8485904--8485942 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8485894 AAATTTAAAT
*
8485904 AAAATTAAA-TTGGGCCTTC
1 AAAAATAAACTTGGGCCTTC
8485923 AAAAATAAACTTTGGGCCTT
1 AAAAATAAAC-TTGGGCCTT
8485943 TAAACCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAAATAAACTTGGGCCTTC
Found at i:8486331 original size:45 final size:46
Alignment explanation
Indices: 8486280--8486366 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
8486270 TCTTGAAAAA
* *
8486280 CTTCTCTCAT-TAAGGTTCAATAACTTTTGAAAATAAATCGAAATG
1 CTTCTCTCATCAAAGGCTCAATAACTTTTGAAAATAAATCGAAATG
*
8486325 CTTCTCTCATCAAAGGCTCTATAACTTTTGAAAATAAATCGA
1 CTTCTCTCATCAAAGGCTCAATAACTTTTGAAAATAAATCGA
8486367 TAACTCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
45 10 0.26
46 28 0.74
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.34
Consensus pattern (46 bp):
CTTCTCTCATCAAAGGCTCAATAACTTTTGAAAATAAATCGAAATG
Found at i:8487076 original size:126 final size:126
Alignment explanation
Indices: 8486925--8487275 Score: 359
Period size: 126 Copynumber: 2.8 Consensus size: 126
8486915 AATACTTATG
* * * * * * *
8486925 AATCTTACCCAAAGAACTTAAAGACTAAGCCCAAAGGTCTTACAAATCTTGATAGT-TATGAATG
1 AATCTTACTCAGAGGACTTAGAGACTAAGCCCAAAGGTCTTACAAATCTTAACA-TCTACGAATG
* *
8486989 CTTCTCTAATTAA-AGGCCTTGCA-ACTTTAAAAATTTAAAATATTTTGCCTGAAAGACATAAA
65 CTCCTCTAA-AAAGAGGCCTTG-AGACTTTAAAAATTTAAAATATTTTGCCTGAAAGACATAAA
** * * *** *
8487051 AATCTTACTTGGAGGACTTAGAGACTATGTCTGGAGGTTTTACAAATCTTAACATCTACGAATGC
1 AATCTTACTCAGAGGACTTAGAGACTAAGCCCAAAGGTCTTACAAATCTTAACATCTACGAATGC
* * * **
8487116 TCCTCTAAAAAGAGGCCTTGAGACTTTAAAAATTTAAAATATTTTTCCTGGAAGACTTATG
66 TCCTCTAAAAAGAGGCCTTGAGACTTTAAAAATTTAAAATATTTTGCCTGAAAGACATAAA
* * ** ** * *
8487177 AATCTTGCTCAGAGGACTTAGAGACTATGTTCGGAGGTTTTACAAATCTTGACATCTACGAATGC
1 AATCTTACTCAGAGGACTTAGAGACTAAGCCCAAAGGTCTTACAAATCTTAACATCTACGAATGC
*
8487242 TCC-CTTAAAAAGAGGCCTTGAAACTTTAAAAATT
66 TCCTC-TAAAAAGAGGCCTTGAGACTTTAAAAATT
8487276 GTCTTCATTT
Statistics
Matches: 192, Mismatches: 29, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
125 5 0.03
126 187 0.97
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (126 bp):
AATCTTACTCAGAGGACTTAGAGACTAAGCCCAAAGGTCTTACAAATCTTAACATCTACGAATGC
TCCTCTAAAAAGAGGCCTTGAGACTTTAAAAATTTAAAATATTTTGCCTGAAAGACATAAA
Found at i:8496701 original size:682 final size:680
Alignment explanation
Indices: 8494929--8496953 Score: 2496
Period size: 672 Copynumber: 3.0 Consensus size: 680
8494919 GGTAGATTTA
** * * *
8494929 AAAATTCACTATAATTCATATGCAATGAATTAGGTGATGAATTCTATATGGATAAAAAAGCC-TT
1 AAAATTCACTATAATTTGTATACAATGAATTAGGTGATGAATTTTATATGGATAGAAAA-CCTTT
* * * *
8494993 TAAGTCTAGTTTCTAAATGTTCAAACAGTTTTTGATTTAGAATTGTATAATTCAAGATATGATCA
65 TAAGTCTAGTTTCTAAATCTTCAAACGGTTTTTGATTTGGAATTGTATAACTCAAGATATGATCA
* * * * *
8495058 AATTAGTAAGTAGAGTACAAAATAAAATACAACCACCTAGCTTGACCGGATTAATCCCCTGGGTT
130 AATTAATAAGTAGAGTGCAAAATAAGATACAACTACCTAGCTTGACCGGATTGATCCCCTGGGTT
* * * * * *
8495123 ACAAGATCAATCCCCTAGTTGAACCAATCGATCCCCTCTTATAATGGATCAATTAATTTTTCTTA
195 ACAGGATCAATCTCTTGGTTGAACCAATCGATCCCCTCTTGTAATGGATCAATTGATTTTTCTTA
* * * * * *
8495188 CAAAAATAAAATTGATTTGACAAACGCTAAAAGGGATCA-ATCTCCTATAAGAAAGGATCGATCG
260 C-AAAACAAAATTGATTTGAAAAACACTAAAAGAGAT-AGATC-CCTATAAGAAGGGATCAATCG
* *
8495252 GGTAAGGCACA-GAATCAATCTCCTATCAAAACCAATCGATCCCCTATGCCCAGAAAAGCTCCAA
322 GGTAAGGCACATG-ATCAATCCCCTATCAAAACCAATTGATCCCCTATGCCCAGAAAAGCTCCAA
*** * * * * * *
8495316 CGGTTAG-TTTTCAACCTTCAACAGTTTTTTTCAACTCTAAATCATCCCCAATAGCTTATTTTTC
386 CAACTAGTTTTTCAAGCTTCAACAGTTTTTTTCAACTCCAAACCATCTCCAATAGCTTGTTCTTC
* * * * *
8495380 AATTCTTCTATAAAATGGACATTCCAACACACCAAGAAAATTGATGAAATAAAAGAGTAAGAACC
451 AATTCTTCTATAAATTGG-CATTCCAACACTCCAAGAAAGTTGATGAAACAAGAGAGTAAGAACC
* * * *
8495445 AACAAGCCATATTTTTATTTTCTCAAAGAATCAAGAGTTGTTAGCACTTAAAAATCC----A---
515 AAAAAGCTATATTTTTATTCTCTCAAAGAATCAAGAGTTGTTAGAACTTAAAAATCCATATATTT
* * * *
8495503 --TATCT-TTGTATCCAAATCATATTTGTTATTCATTTATCATTTT-TTCATACTTAAACTTAGT
580 TGTATTTATTGTATCCAAATCATATTTGTTATTCATTCATCATTTTCTT-GTACTTAAACTTAGC
* *
8495564 AAACACCTAACCTTAGAGAGGTTATTCTATTGTGGGT
644 AAACACCTAGCCTTAGAGAGGTTATTCTATTGTGGGC
* *
8495601 AAAATTCATTATAATTTGTATATAATGAATTAGGTGATGAATTTTATATGGATAGAAAACCTTTT
1 AAAATTCACTATAATTTGTATACAATGAATTAGGTGATGAATTTTATATGGATAGAAAACCTTTT
* * * *
8495666 AAGTCTAGTTTCTAAATCTTTAAACGATTTTTTATTTGGAATTGTATAACTCAACATATGATCAA
66 AAGTCTAGTTTCTAAATCTTCAAACGGTTTTTGATTTGGAATTGTATAACTCAAGATATGATCAA
* * * * * *
8495731 ATTAATGAGTATAGTGTAAAATAGGATACAACTACCCAACTTGACCGGATTGATCCCCTGGGTTA
131 ATTAATAAGTAGAGTGCAAAATAAGATACAACTACCTAGCTTGACCGGATTGATCCCCTGGGTTA
* * * * *
8495796 TAGAATCAATCTCTTGGTTAAACCAATCGATCCCCTCTTGTAATGAATCGATTGATTTTTCTTAC
196 CAGGATCAATCTCTTGGTTGAACCAATCGATCCCCTCTTGTAATGGATCAATTGATTTTTCTTAC
* * *
8495861 AAAAGCAAAATTGATTTGAAAAATAAC-AAAAGAGATAGATCCCTTACAAGAAGAGATCAATCGG
261 AAAA-CAAAATTGATTTGAAAAA-CACTAAAAGAGATAGATCCC-TATAAGAAGGGATCAATCGG
* * * * *
8495925 GTAAAGCACAAT-ATCAATCCCCTATCAGAACCAATTAATCCCCTATGCCCAAAAAATCTCCAAC
323 GTAAGGCAC-ATGATCAATCCCCTATCAAAACCAATTGATCCCCTATGCCCAGAAAAGCTCCAAC
8495989 AACTAGTTTTTCAAGCTTCAACAG-TTTTTTCAACTCCAAACCATCTCCAACT-GCTTGTTCTTC
387 AACTAGTTTTTCAAGCTTCAACAGTTTTTTTCAACTCCAAACCATCTCCAA-TAGCTTGTTCTTC
* * * * *
8496052 AGTTTTTCTATAAATTGAGCATTCTAACACTCCAAGAAAGTTGATAAAACAAGAGAGTAAGAAAC
451 AATTCTTCTATAAATTG-GCATTCCAACACTCCAAGAAAGTTGATGAAACAAGAGAGTAAGAACC
8496117 AAAAAGCTATATTTTTATTCTCTCAAAGAATCAAGAGTTGTTA-AAGCTTAAAAATCCATATATT
515 AAAAAGCTATATTTTTATTCTCTCAAAGAATCAAGAGTTGTTAGAA-CTTAAAAATCCATATATT
8496181 TTGTATTTATTGTATCCAAATCATATTTGTTATTCATTCATCATTTTCTTGTACTTAAACTTAGC
579 TTGTATTTATTGTATCCAAATCATATTTGTTATTCATTCATCATTTTCTTGTACTTAAACTTAGC
* * * **
8496246 AAACAGCTAGCCTTAGATATGTTATTCTATTGTTTGC
644 AAACACCTAGCCTTAGAGAGGTTATTCTATTGTGGGC
8496283 AAAATTCACTATAATTTGTATACAATGAATTAGGTGATGAATTTTATATGGATAGAAAACCTTTT
1 AAAATTCACTATAATTTGTATACAATGAATTAGGTGATGAATTTTATATGGATAGAAAACCTTTT
* * * * * *
8496348 AAATCTAGTTTTTAAATCTTCAAATGGTTTTTGATTTGGAATTATAGAACTCAAGATATTATCAA
66 AAGTCTAGTTTCTAAATCTTCAAACGGTTTTTGATTTGGAATTGTATAACTCAAGATATGATCAA
* * * *
8496413 ATTAAT-AGTAGAGTGCAAAATAAGATACAACTGCCTAGCTTGACTGGATTGATCCCTTGGATTA
131 ATTAATAAGTAGAGTGCAAAATAAGATACAACTACCTAGCTTGACCGGATTGATCCCCTGGGTTA
* *
8496477 CAGGATCAATCTCTTGGTTGAACCAATCGATCCTCTCTTGTAATGGATCAATTGATTTTTCTTAT
196 CAGGATCAATCTCTTGGTTGAACCAATCGATCCCCTCTTGTAATGGATCAATTGATTTTTCTTAC
* * **
8496542 AGAAACAAAATTGTTTTGAAAAACACTAAAAGAGATTGATACCCTATAAGAAGGGATCAATTAGG
261 A-AAACAAAATTGATTTGAAAAACACTAAAAGAGATAGAT-CCCTATAAGAAGGGATCAATCGGG
* * * * * **
8496607 TAAGGCACATGATCGATCCCCTATCATAATCAATTGATCCCTTATACTTAGAAAAGCTCCAACAA
324 TAAGGCACATGATCAATCCCCTATCAAAACCAATTGATCCCCTATGCCCAGAAAAGCTCCAACAA
* ** *
8496672 CTAGTTTTTCAAGCTTTAATGGTTTTTTTCAACTCCAAACCAT-TCCAAATGGCTTGTTCTTCAA
389 CTAGTTTTTCAAGCTTCAACAGTTTTTTTCAACTCCAAACCATCTCC-AATAGCTTGTTCTTCAA
* * * *
8496736 TTCTTCTATAAATTTGTCATTCCAACACAT-TAAGAAGGTTGATGAAACAAGAAAGTAAGAACCA
453 TTCTTCTATAAA-TTGGCATTCCAACAC-TCCAAGAAAGTTGATGAAACAAGAGAGTAAGAACCA
* * * * * *
8496800 ATAAGGTATATTTTAATTCTCTCAAAGAATCAACAATTGTTAGAACTTAAAAATCCATATCTTTT
516 AAAAGCTATATTTTTATTCTCTCAAAGAATCAAGAGTTGTTAGAACTTAAAAATCCATATATTTT
* * ** * * *
8496865 GTGTTTATTGTAT-AAGAATTGTATTTGTTATTCATTCATCGTTTCCTAGTACTTAAACTTAGCA
581 GTATTTATTGTATCCA-AATCATATTTGTTATTCATTCATCATTTTCTTGTACTTAAACTTAGCA
* * *
8496929 AACACCTAGCTTTAAAGAAGTTATT
645 AACACCTAGCCTTAGAGAGGTTATT
8496954 TGATTATTTA
Statistics
Matches: 1157, Mismatches: 163, Indels: 56
0.84 0.12 0.04
Matches are distributed among these distances:
671 10 0.01
672 456 0.39
673 20 0.02
676 1 0.00
680 4 0.00
681 233 0.20
682 425 0.37
683 8 0.01
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (680 bp):
AAAATTCACTATAATTTGTATACAATGAATTAGGTGATGAATTTTATATGGATAGAAAACCTTTT
AAGTCTAGTTTCTAAATCTTCAAACGGTTTTTGATTTGGAATTGTATAACTCAAGATATGATCAA
ATTAATAAGTAGAGTGCAAAATAAGATACAACTACCTAGCTTGACCGGATTGATCCCCTGGGTTA
CAGGATCAATCTCTTGGTTGAACCAATCGATCCCCTCTTGTAATGGATCAATTGATTTTTCTTAC
AAAACAAAATTGATTTGAAAAACACTAAAAGAGATAGATCCCTATAAGAAGGGATCAATCGGGTA
AGGCACATGATCAATCCCCTATCAAAACCAATTGATCCCCTATGCCCAGAAAAGCTCCAACAACT
AGTTTTTCAAGCTTCAACAGTTTTTTTCAACTCCAAACCATCTCCAATAGCTTGTTCTTCAATTC
TTCTATAAATTGGCATTCCAACACTCCAAGAAAGTTGATGAAACAAGAGAGTAAGAACCAAAAAG
CTATATTTTTATTCTCTCAAAGAATCAAGAGTTGTTAGAACTTAAAAATCCATATATTTTGTATT
TATTGTATCCAAATCATATTTGTTATTCATTCATCATTTTCTTGTACTTAAACTTAGCAAACACC
TAGCCTTAGAGAGGTTATTCTATTGTGGGC
Found at i:8498910 original size:34 final size:34
Alignment explanation
Indices: 8498866--8498939 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
8498856 ACAAACATTG
* * *
8498866 CATTTATATAAGAAAAACATAGTCTTTAACTTTA
1 CATTTGTATAACAAAAACATAATCTTTAACTTTA
*
8498900 CATTTGTATAACAAAAACATAATCTTTGACTTTA
1 CATTTGTATAACAAAAACATAATCTTTAACTTTA
*
8498934 TATTTG
1 CATTTG
8498940 ACTTTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.41
Consensus pattern (34 bp):
CATTTGTATAACAAAAACATAATCTTTAACTTTA
Found at i:8501755 original size:2 final size:2
Alignment explanation
Indices: 8501748--8501782 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8501738 TCTGTTTCAA
8501748 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
8501783 AAGAAGGACA
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:8502003 original size:11 final size:11
Alignment explanation
Indices: 8501987--8502026 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8501977 TTAATTGGTT
8501987 AAAAAAATTTA
1 AAAAAAATTTA
*
8501998 AAAAAATTTTA
1 AAAAAAATTTA
**
8502009 AAAAAAAAGTA
1 AAAAAAATTTA
8502020 AAAAAAA
1 AAAAAAA
8502027 AAGGAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAAAAATTTA
Found at i:8502624 original size:20 final size:20
Alignment explanation
Indices: 8502595--8502677 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
8502585 TTTTGCATGA
8502595 ATTTGCATGATTAACATTAT
1 ATTTGCATGATTAACATTAT
* * *
8502615 GTTTGTATGATTAATATTAT
1 ATTTGCATGATTAACATTAT
*
8502635 ATTTGCATGA-T---ATTTT
1 ATTTGCATGATTAACATTAT
8502651 ATTTGCATGATT-A-A-TAT
1 ATTTGCATGATTAACATTAT
8502668 ATTTGCATGA
1 ATTTGCATGA
8502678 ATTTAATTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
16 14 0.26
17 13 0.24
18 1 0.02
19 1 0.02
20 25 0.46
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.49
Consensus pattern (20 bp):
ATTTGCATGATTAACATTAT
Found at i:8502653 original size:16 final size:16
Alignment explanation
Indices: 8502628--8502703 Score: 73
Period size: 17 Copynumber: 4.7 Consensus size: 16
8502618 TGTATGATTA
*
8502628 ATATTATATTTGCATG
1 ATATTTTATTTGCATG
8502644 ATATTTTATTTGCATG
1 ATATTTTATTTGCATG
* *
8502660 ATTAATATATTTGCATG
1 A-TATTTTATTTGCATG
* *
8502677 A-ATTTAATTTGCTTG
1 ATATTTTATTTGCATG
*
8502692 CATAATTTATTT
1 -ATATTTTATTT
8502704 AACTGTATGA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
15 10 0.21
16 17 0.35
17 21 0.44
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.53
Consensus pattern (16 bp):
ATATTTTATTTGCATG
Found at i:8502761 original size:24 final size:24
Alignment explanation
Indices: 8502734--8502833 Score: 110
Period size: 24 Copynumber: 3.8 Consensus size: 24
8502724 TAATTACATT
8502734 ATTATTAATATATTTATTTGTATG
1 ATTATTAATATATTTATTTGTATG
8502758 ATTACTTAATATATTTATGTGTGTAATTGTATG
1 ATTA-TTAATATATTTA------T--TTGTATG
*
8502791 ATTATTAATATATTTATTTGCATG
1 ATTATTAATATATTTATTTGTATG
8502815 ATTATTAATATATTTATTT
1 ATTATTAATATATTTATTT
8502834 ATGTGATTTA
Statistics
Matches: 66, Mismatches: 1, Indels: 18
0.78 0.01 0.21
Matches are distributed among these distances:
24 29 0.44
25 12 0.18
26 1 0.02
31 1 0.02
32 12 0.18
33 11 0.17
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (24 bp):
ATTATTAATATATTTATTTGTATG
Found at i:8502762 original size:32 final size:31
Alignment explanation
Indices: 8502726--8502818 Score: 72
Period size: 32 Copynumber: 3.1 Consensus size: 31
8502716 CATTAATTTA
8502726 ATTACATTATTATTAATATATTTATTTGTATG
1 ATTACA-TATTATTAATATATTTATTTGTATG
* * *
8502758 ATTAC------TTAATATATTTATGTGTGTA
1 ATTACATATTATTAATATATTTATTTGTATG
** *
8502783 ATTGTATGATTATTAATATATTTATTTGCATG
1 ATTACAT-ATTATTAATATATTTATTTGTATG
8502815 ATTA
1 ATTA
8502819 TTAATATATT
Statistics
Matches: 44, Mismatches: 10, Indels: 14
0.65 0.15 0.21
Matches are distributed among these distances:
25 20 0.45
32 24 0.55
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (31 bp):
ATTACATATTATTAATATATTTATTTGTATG
Found at i:8508916 original size:40 final size:41
Alignment explanation
Indices: 8508857--8508939 Score: 132
Period size: 40 Copynumber: 2.0 Consensus size: 41
8508847 GTGCACAGCA
*
8508857 CCACTGCCACCCTTATGTAGCCCCA-TCACCCCCTGTCTAC
1 CCACTGCCACCCTTATGTAGACCCATTCACCCCCTGTCTAC
* *
8508897 CCACTGCCACCCTTCTGTAGACCCATTCCCCCCCTGTCTAC
1 CCACTGCCACCCTTATGTAGACCCATTCACCCCCTGTCTAC
8508938 CC
1 CC
8508940 TCTGTACACC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 23 0.59
41 16 0.41
ACGTcount: A:0.16, C:0.52, G:0.10, T:0.23
Consensus pattern (41 bp):
CCACTGCCACCCTTATGTAGACCCATTCACCCCCTGTCTAC
Found at i:8508920 original size:22 final size:22
Alignment explanation
Indices: 8508857--8508921 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
8508847 GTGCACAGCA
* *
8508857 CCACTGCCACCCTTATGTAGCC
1 CCACTGCCACCCTTCTGTAGAC
* **
8508879 CCA-T--CACCC-CCTGTCTAC
1 CCACTGCCACCCTTCTGTAGAC
8508897 CCACTGCCACCCTTCTGTAGAC
1 CCACTGCCACCCTTCTGTAGAC
8508919 CCA
1 CCA
8508922 TTCCCCCCCT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
18 7 0.23
19 6 0.19
21 6 0.19
22 12 0.39
ACGTcount: A:0.18, C:0.49, G:0.11, T:0.22
Consensus pattern (22 bp):
CCACTGCCACCCTTCTGTAGAC
Found at i:8508939 original size:19 final size:21
Alignment explanation
Indices: 8508883--8508939 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 21
8508873 GTAGCCCCAT
8508883 CACCCCCTGTCTACCCACTGC
1 CACCCCCTGTCTACCCACTGC
* ** *
8508904 CACCCTTCTGTAGACCCA-TTC
1 CACCC-CCTGTCTACCCACTGC
8508925 C-CCCCCTGTCTACCC
1 CACCCCCTGTCTACCC
8508940 TCTGTACACC
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
19 8 0.29
20 3 0.11
21 8 0.29
22 9 0.32
ACGTcount: A:0.14, C:0.54, G:0.09, T:0.23
Consensus pattern (21 bp):
CACCCCCTGTCTACCCACTGC
Found at i:8511246 original size:40 final size:41
Alignment explanation
Indices: 8511186--8511268 Score: 116
Period size: 40 Copynumber: 2.0 Consensus size: 41
8511176 GGTGTATAGA
* * *
8511186 GGGTAGACATGGGGGTGATGGGTCTATA-AAGGGGTGGCAGT
1 GGGTAGACATGAGGGTGATGGGGCTACATAA-GGGTGGCAGT
8511227 GGGTAGACA-GAGGGTGATGGGGCTACATAAGGGTGGCAGT
1 GGGTAGACATGAGGGTGATGGGGCTACATAAGGGTGGCAGT
8511267 GG
1 GG
8511269 TGCTGTGCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 27 0.71
41 11 0.29
ACGTcount: A:0.23, C:0.08, G:0.49, T:0.19
Consensus pattern (41 bp):
GGGTAGACATGAGGGTGATGGGGCTACATAAGGGTGGCAGT
Found at i:8515519 original size:5 final size:5
Alignment explanation
Indices: 8515509--8515558 Score: 57
Period size: 5 Copynumber: 9.6 Consensus size: 5
8515499 TAGATGTTTG
*
8515509 TTATT TTATT TTATT TTATTTT TTATT TT-TT TATTTT TTATT TTATT
1 TTATT TTATT TTATT TTA--TT TTATT TTATT T-TATT TTATT TTATT
8515556 TTA
1 TTA
8515559 GGATAATAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
4 3 0.08
5 29 0.73
6 3 0.08
7 5 0.12
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:8515542 original size:20 final size:20
Alignment explanation
Indices: 8515517--8515557 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
8515507 TGTTATTTTA
8515517 TTTTATTTTATT-TTTTATTT
1 TTTTATTTT-TTATTTTATTT
8515537 TTTTATTTTTTATTTTATTT
1 TTTTATTTTTTATTTTATTT
8515557 T
1 T
8515558 AGGATAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTATTTTTTATTTTATTT
Found at i:8516834 original size:189 final size:187
Alignment explanation
Indices: 8516491--8516846 Score: 397
Period size: 189 Copynumber: 1.9 Consensus size: 187
8516481 GGAAAAATGT
* * *
8516491 TAATTATCCAATGATAGAATTTATAAAAATTTCAAATGGTAAATTTTTATAAAATTCTTAGGTGA
1 TAATTATCCAACGATAGAATTTATAAAAATTTCAAATGGTAAATTTTTATAAAAATCTTAAGTGA
** * * * *
8516556 AAATTTTTGTCTAAATTTGACCCAAATGGTGGAATAATTTAGATAAAGTTTTAATAACAATAATT
66 AAATTTTCCTCTAAATTTGACCCAAATGGTGGAAGAATTTAAATAAAGTTTCAATAAAAATAATT
* **
8516621 AATATTTATTTTCAATCCAAAAAAATTAAAAATTAAAAATTTTTGTTGAAAATATTTGA
131 AATATTTATTTTCAAT-AAAAAAAAAGAAAAA-TAAAAATTTTTGTTGAAAATATTTGA
8516680 TAATTATCCAACGAT-GAGATTGT-TAAAAATTTCAAATGGTAAATTTTT-TAAGAAAT-TTAAG
1 TAATTATCCAACGATAGA-ATT-TATAAAAATTTCAAATGGTAAATTTTTATAA-AAATCTTAAG
* *
8516741 TGAGAAA-TTTCCT-TAAATTT-ATCTCAAATTGTGGAAGAATTTAAATGAAA-TTTCAATAAAA
63 TGA-AAATTTTCCTCTAAATTTGA-CCCAAATGGTGGAAGAATTTAAAT-AAAGTTTCAAT-AAA
* **
8516802 AATAATT-GTCATATTATTTTCTTTAAAAAAAAAGAAAAATAAAAA
124 AATAATTAAT-AT-TTATTTTCAATAAAAAAAAAGAAAAATAAAAA
8516847 GAATTTCTAA
Statistics
Matches: 141, Mismatches: 17, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
186 1 0.01
187 40 0.28
188 42 0.30
189 57 0.40
190 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (187 bp):
TAATTATCCAACGATAGAATTTATAAAAATTTCAAATGGTAAATTTTTATAAAAATCTTAAGTGA
AAATTTTCCTCTAAATTTGACCCAAATGGTGGAAGAATTTAAATAAAGTTTCAATAAAAATAATT
AATATTTATTTTCAATAAAAAAAAAGAAAAATAAAAATTTTTGTTGAAAATATTTGA
Found at i:8516904 original size:49 final size:48
Alignment explanation
Indices: 8516842--8517027 Score: 156
Period size: 49 Copynumber: 3.7 Consensus size: 48
8516832 AAAGAAAAAT
* * *
8516842 AAAAAGAATTTCTAAATGGGCCCAAATGGTGAAAATTTTAAAAATTTCA
1 AAAAAAAATTTCTAAATTGGCCCAAATAGTGAAAATTTTAAAAA-TTCA
* * * * ***
8516891 AAAAAAAATTTCTAAATTGACTCAAATAGTAAAAAATTTAGAAATAAAAAAA
1 AAAAAAAATTTCTAAATTGGCCCAAATAGT-GAAAATTT--TAA-AAATTCA
* * * *
8516943 ATAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTCA
1 A-AAAAA-AATTTCTAAATTGGCCCAAATAGTGAAAATTTTAAAAATTCA
* *
8516993 AAAAAAATATTTTTAATTTGGCCCAAATAGTGAAA
1 AAAAAAA-ATTTCTAAATTGGCCCAAATAGTGAAA
8517028 TAATTAGATA
Statistics
Matches: 105, Mismatches: 25, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
48 1 0.01
49 53 0.50
50 12 0.11
51 1 0.01
52 4 0.04
53 14 0.13
54 20 0.19
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (48 bp):
AAAAAAAATTTCTAAATTGGCCCAAATAGTGAAAATTTTAAAAATTCA
Found at i:8516957 original size:54 final size:56
Alignment explanation
Indices: 8516891--8517001 Score: 154
Period size: 54 Copynumber: 2.0 Consensus size: 56
8516881 AAAAATTTCA
* *
8516891 AAAAAAAATTTCTAAATTGACTCAAATAGTAAAAAATTTAGAAA-T-AAAAAAAAT
1 AAAAAAAATTTCTAAATAGACCCAAATAGTAAAAAATTTAGAAATTCAAAAAAAAT
* * * *
8516945 AAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTCAAAAAAAAT
1 AAAAAAAATTTCTAAATAGACCCAAATAGTAAAAAATTTAGAAATTCAAAAAAAAT
8517001 A
1 A
8517002 TTTTTAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 38 0.78
55 1 0.02
56 10 0.20
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.24
Consensus pattern (56 bp):
AAAAAAAATTTCTAAATAGACCCAAATAGTAAAAAATTTAGAAATTCAAAAAAAAT
Found at i:8516958 original size:103 final size:104
Alignment explanation
Indices: 8516836--8517032 Score: 299
Period size: 103 Copynumber: 1.9 Consensus size: 104
8516826 AAAAAAAAAG
* *
8516836 AAAAATAAAAAGAATTTCTAAATGGGCCCAAATGGTGAAAATTTTAAAAATTTCAAAAAAAA-AT
1 AAAAATAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAAAAA-TTCAAAAAAAATAT
*
8516900 TTCTAAATTGACTCAAATAGT-AAAAAATTTAGAAATAAA
65 TTCTAAATTGACCCAAATAGTGAAAAAATTTAGAAATAAA
*
8516939 AAAAATAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTCAAAAAAAATATT
1 AAAAATAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAAAAATTCAAAAAAAATATT
* * * *
8517004 TTTAATTTGGCCCAAATAGTGAAATAATT
66 TCTAAATTGACCCAAATAGTGAAAAAATT
8517033 AGATATATTT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
102 11 0.13
103 66 0.79
104 7 0.08
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (104 bp):
AAAAATAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAAAAATTCAAAAAAAATATT
TCTAAATTGACCCAAATAGTGAAAAAATTTAGAAATAAA
Found at i:8517682 original size:13 final size:13
Alignment explanation
Indices: 8517664--8517711 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
8517654 CTGGTTTAGG
*
8517664 TATTTTTTTTTGT
1 TATTTTTTTTTAT
*
8517677 TATTTTTATTTAT
1 TATTTTTTTTTAT
* *
8517690 ATATTATTTTTAAT
1 -TATTTTTTTTTAT
8517704 TATTTTTT
1 TATTTTTT
8517712 AAAATTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
TATTTTTTTTTAT
Found at i:8518499 original size:18 final size:20
Alignment explanation
Indices: 8518478--8518522 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
8518468 AAAAATCTTG
* *
8518478 AAAAAATGTGAAAT-AATA-
1 AAAAAATATAAAATAAATAT
8518496 AAAAAATATAAAATAAATAT
1 AAAAAATATAAAATAAATAT
8518516 AAAAAAT
1 AAAAAAT
8518523 TGATGAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 12 0.52
19 4 0.17
20 7 0.30
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAAAATATAAAATAAATAT
Found at i:8518502 original size:11 final size:10
Alignment explanation
Indices: 8518488--8518521 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
8518478 AAAAAATGTG
8518488 AAATAATAAAA
1 AAAT-ATAAAA
8518499 AAATATAAAA
1 AAATATAAAA
8518509 TAAATATAAAA
1 -AAATATAAAA
8518520 AA
1 AA
8518522 TTGATGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATATAAAA
Found at i:8519011 original size:2 final size:2
Alignment explanation
Indices: 8519004--8519029 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8518994 ATGATTCATG
8519004 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8519030 TATTTCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8519379 original size:17 final size:15
Alignment explanation
Indices: 8519359--8519393 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
8519349 TTATGACACT
8519359 AAAATAATAAATATAAA
1 AAAATAAT-AAT-TAAA
8519376 AAAATAATAATTAAA
1 AAAATAATAATTAAA
8519391 AAA
1 AAA
8519394 TATATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 3 0.17
17 8 0.44
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAATAATTAAA
Found at i:8519381 original size:14 final size:14
Alignment explanation
Indices: 8519358--8519408 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
8519348 ATTATGACAC
*
8519358 TAAAATAATAAATA
1 TAAAAAAATAAATA
8519372 TAAAAAAAT-AATAA
1 TAAAAAAATAAAT-A
* *
8519386 TTAAAAAATATATA
1 TAAAAAAATAAATA
8519400 -AAAAAAATA
1 TAAAAAAATA
8519409 TTACATCAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 11 0.35
14 18 0.58
15 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAAAAAATAAATA
Found at i:8520160 original size:7 final size:7
Alignment explanation
Indices: 8520150--8520174 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8520140 AAAAAATAAA
8520150 TTTTATT
1 TTTTATT
8520157 TTTTATT
1 TTTTATT
8520164 TTTTATT
1 TTTTATT
8520171 TTTT
1 TTTT
8520175 TTAAATGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:8521381 original size:17 final size:16
Alignment explanation
Indices: 8521338--8521393 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
8521328 TTTTTCTCTC
*
8521338 ATTTTT-TATTACTTT
1 ATTTTTATATTATTTT
* *
8521353 AGTATTATTATTAATTTT
1 ATTTTTA-TATT-ATTTT
8521371 ATTTTTATATTATTTT
1 ATTTTTATATTATTTT
*
8521387 GTTTTTA
1 ATTTTTA
8521394 AAGTTTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.12
16 11 0.34
17 8 0.25
18 9 0.28
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (16 bp):
ATTTTTATATTATTTT
Found at i:8521488 original size:18 final size:18
Alignment explanation
Indices: 8521465--8521499 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8521455 ATCTAACAAA
*
8521465 CATAAATATTTTAATATG
1 CATAAATATTATAATATG
8521483 CATAAATATTATAATAT
1 CATAAATATTATAATAT
8521500 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
CATAAATATTATAATATG
Found at i:8522448 original size:23 final size:22
Alignment explanation
Indices: 8522408--8522453 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
8522398 TAGGTAATCA
*
8522408 GAGGGGTGGGGTAGGGCATGGT
1 GAGGGATGGGGTAGGGCATGGT
8522430 GAGGGATGGGTGTAGGGCATGGT
1 GAGGGATGGG-GTAGGGCATGGT
8522453 G
1 G
8522454 GCAGTGGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.15, C:0.04, G:0.61, T:0.20
Consensus pattern (22 bp):
GAGGGATGGGGTAGGGCATGGT
Found at i:8522516 original size:12 final size:13
Alignment explanation
Indices: 8522501--8522548 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
8522491 TTTTTTTTTG
8522501 TTTTTTGT-TCTT
1 TTTTTTGTATCTT
*
8522513 TTTTTTGTATTTT
1 TTTTTTGTATCTT
8522526 TTGTTTTGTAT-TT
1 TT-TTTTGTATCTT
*
8522539 TGTTTTGTAT
1 TTTTTTGTAT
8522549 TTTGTATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 16 0.50
13 8 0.25
14 8 0.25
ACGTcount: A:0.06, C:0.02, G:0.12, T:0.79
Consensus pattern (13 bp):
TTTTTTGTATCTT
Found at i:8522532 original size:26 final size:27
Alignment explanation
Indices: 8522494--8522551 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 27
8522484 TCCTCGATTT
*
8522494 TTTTTTGTTTTTTGT-TCTTTTTTTTGTA
1 TTTTTTG-TTTTTGTAT-TTTGTTTTGTA
8522522 TTTTTTG-TTTTGTATTTTGTTTTGTA
1 TTTTTTGTTTTTGTATTTTGTTTTGTA
8522548 TTTT
1 TTTT
8522552 GTATTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 20 0.71
27 1 0.04
28 7 0.25
ACGTcount: A:0.05, C:0.02, G:0.12, T:0.81
Consensus pattern (27 bp):
TTTTTTGTTTTTGTATTTTGTTTTGTA
Found at i:8522540 original size:33 final size:32
Alignment explanation
Indices: 8522491--8522570 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 32
8522481 CCATCCTCGA
* *
8522491 TTTTTTTTTGTTTTTTGTTCTT-TTTTTTGTAT
1 TTTTTTTTTGTATTTTGTT-TTGTATTTTGTAT
8522523 TTTTTGTTTTGTATTTTGTTTTGTATTTTGTA-
1 TTTTT-TTTTGTATTTTGTTTTGTATTTTGTAT
* *
8522555 TTATTTTTGGTATTTT
1 TTTTTTTTTGTATTTT
8522571 TTTATTAGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 10 0.24
32 11 0.26
33 21 0.50
ACGTcount: A:0.07, C:0.01, G:0.12, T:0.79
Consensus pattern (32 bp):
TTTTTTTTTGTATTTTGTTTTGTATTTTGTAT
Found at i:8522549 original size:12 final size:12
Alignment explanation
Indices: 8522511--8522553 Score: 61
Period size: 12 Copynumber: 3.5 Consensus size: 12
8522501 TTTTTTGTTC
8522511 TTTT-TTTTGTA
1 TTTTGTTTTGTA
8522522 TTTTTTGTTTTGTA
1 --TTTTGTTTTGTA
8522536 TTTTGTTTTGTA
1 TTTTGTTTTGTA
8522548 TTTTGT
1 TTTTGT
8522554 ATTATTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 18 0.62
13 4 0.14
14 7 0.24
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (12 bp):
TTTTGTTTTGTA
Found at i:8522551 original size:7 final size:7
Alignment explanation
Indices: 8522515--8522556 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
8522505 TTGTTCTTTT
8522515 TTTTGTA
1 TTTTGTA
* *
8522522 TTTTTTG
1 TTTTGTA
8522529 TTTTGTA
1 TTTTGTA
8522536 TTTTG--
1 TTTTGTA
8522541 TTTTGTA
1 TTTTGTA
8522548 TTTTGTA
1 TTTTGTA
8522555 TT
1 TT
8522557 ATTTTTGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
5 5 0.17
7 24 0.83
ACGTcount: A:0.10, C:0.00, G:0.14, T:0.76
Consensus pattern (7 bp):
TTTTGTA
Found at i:8522551 original size:19 final size:19
Alignment explanation
Indices: 8522529--8522570 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
8522519 GTATTTTTTG
*
8522529 TTTTGTATT-TTGTTTTGTA
1 TTTTGTATTATT-TTTGGTA
8522548 TTTTGTATTATTTTTGGTA
1 TTTTGTATTATTTTTGGTA
8522567 TTTT
1 TTTT
8522571 TTTATTAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.12, C:0.00, G:0.14, T:0.74
Consensus pattern (19 bp):
TTTTGTATTATTTTTGGTA
Found at i:8522567 original size:12 final size:10
Alignment explanation
Indices: 8522493--8522573 Score: 51
Period size: 12 Copynumber: 7.7 Consensus size: 10
8522483 ATCCTCGATT
8522493 TTTTTTTGT-
1 TTTTTTTGTA
*
8522502 TTTTTGTTCT-
1 TTTTT-TTGTA
8522512 TTTTTTTGTA
1 TTTTTTTGTA
*
8522522 -TTTTTTGTT
1 TTTTTTTGTA
*
8522531 TTGTATTTTGTT
1 TT-T-TTTTGTA
8522543 TTGTATTTTGTA
1 TT-T-TTTTGTA
8522555 TTATTTTTGGTA
1 TT-TTTTT-GTA
8522567 TTTTTTT
1 TTTTTTT
8522574 ATTAGACAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
9 16 0.26
10 9 0.15
11 10 0.16
12 26 0.43
ACGTcount: A:0.07, C:0.01, G:0.12, T:0.79
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:8523068 original size:49 final size:50
Alignment explanation
Indices: 8522736--8523875 Score: 1097
Period size: 50 Copynumber: 23.0 Consensus size: 50
8522726 AAATTAAAAT
* *
8522736 TTGAAAAAGACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * ** *
8522786 TTGAAAAAAAAGCTCCTCTCAGCAGAGGCT-TA-ATTTTTAAAAATTCTTATC
1 TTG--AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TCTCATC
*** *
8522837 TTGAAAAAAATTGCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * *
8522887 TTGAAACAATGGCTCCTCTCACCAGAAGCTCAACGACTTTAAAAAAT-TCATC
1 TTGAAA-AA-GGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAAATCTCATC
* *
8522939 TTGAAAAAGGCTCCTCTCATCAGAGGCTCAATAACTTT-AAAATCTCAT-
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * *
8522987 TTTAAAAA-GCTCCTCTCAGTAGAGGCTCAACAACTTT-AAAATCTCATA
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * *
8523035 TTGAAAAAGGCTCCTTTCAGCAAAGGCTTAACAACTTT-AAAATCTCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * *
8523084 TTGAAAAAGGCTCCTCTCAGTAGAGGCTCGACAACTTTTGAAAATTTAAAAAT-TTATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCT---CAAC------AACTTTAAAAATCTCATC
* *
8523142 TTG-AAAAGAGCTCCTCTCAGCAGAAGCTCAACAATTTTAAAAAAT-TCATC
1 TTGAAAAAG-GCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAAATCTCATC
* * * * *
8523192 TTGAAAAAGGCTCCTCTCAGCAGAGGTTCCATAACTTT-AAATTCTC-TT
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * * * *
8523240 TTTAGAAAA-GCTCCTTTTAACAGAGGCTCAACAATTTTAAAAAAT-TCATC
1 TTGA-AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAAATCTCATC
* * * *
8523290 TTGAAAAAGGCTCCTGTTAGCAGAGGCTCAACAA-TTTTAAAATCTCATT
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
*
8523339 TTG-AAAA-GCTCCTCTCAGCAGAAGCTCAACAACTTTAAAAAT-TCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* *
8523386 TTGGAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAAT-TCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAAATCTCATC
* * *
8523436 TTAAAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAAT-TCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * * *
8523485 TTGAAAAGGGCTCCTTTCAACAGAGGTTCAACAACTTTCAAAAAT-TCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAAATCTCATC
* * * * ** *
8523535 TTGAAAAAAGCTCTTCTTAGCAGAGGCTCCACAACTTT-AAAATCTTTTT
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * * *
8523584 TTGGAAAA-GCTCCTCTTAACAGAGGCTCAACGACTTTAAAAAAT-TCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAAATCTCATC
*
8523633 TTGAAAAAGGTTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATC-CATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * * * *
8523681 TT-AAAAAGGTTCCTCTCAACAGAGGCTTAACAACTTTAAAATTTCTCACC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-ATCTCATC
** * * * * *
8523731 TTGAAAAAAACTCCTCTTAGTAGAGGCTTAACGACGTTAAAAA--TCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * * * *
8523779 TTGAAAAAAGCTTCTCTCAGCAAAGGCTCAACAACTTT-AAAATCTTATT
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* *
8523828 TTG-AAAA-GCTCTTCTCAGTAGAGGCTCAACAACTTT-AAAATCTCATC
1 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
8523875 T
1 T
8523876 ATTCTTCAAA
Statistics
Matches: 903, Mismatches: 140, Indels: 97
0.79 0.12 0.09
Matches are distributed among these distances:
47 137 0.15
48 151 0.17
49 209 0.23
50 239 0.26
51 58 0.06
52 60 0.07
53 6 0.01
55 4 0.00
57 5 0.01
58 29 0.03
59 5 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (50 bp):
TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
Found at i:8523626 original size:98 final size:98
Alignment explanation
Indices: 8523131--8523875 Score: 655
Period size: 98 Copynumber: 7.6 Consensus size: 98
8523121 TTGAAAATTT
* * * *
8523131 AAAAATTTATCTTGAAAAGAGCTCCTCTCAGCAGAAGCTCAACAATTTTAAAAAAT-TCATCTTG
1 AAAAATTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTTG
* * * * *
8523195 AAAAAGGCTCCTCTCAGCAGAGGTTCCATAACTTT-
64 GAAAA-GCTCCTCTCAACAGAGGCTCAACAACTTTA
* * * * * *
8523230 --AAATTC-TCTTTTTAGAAAAGCTCCTTTTAACAGAGGCTCAACAATTTTAAAAAAT-TCATCT
1 AAAAATTCATC--TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCT
* * * *
8523291 TGAAAAAGGCTCCTGTTAGCAGAGGCTCAACAA-TTT-
62 TGGAAAA-GCTCCTCTCAACAGAGGCTCAACAACTTTA
* * *
8523327 TAAAATCTCATTTTG--AAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAAAT-TCATCTTG
1 AAAAAT-TCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
* *
8523389 GAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTA
64 GAAA-AGCTCCTCTCAACAGAGGCTCAACAACTTTA
* *
8523425 AAAAATTCATCTTAAAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAAT-TCATCTT-G
1 AAAAATTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGG
* * *
8523488 AAAAGGGCTCCTTTCAACAGAGGTTCAACAACTTTC
65 AAAA--GCTCCTCTCAACAGAGGCTCAACAACTTTA
* * * ** *
8523524 AAAAATTCATCTTGAAAAAAGCTCTTCTTAGCAGAGGCTCCACAACTTTAAAATCTTTTTTTGGA
1 AAAAATTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGGA
* *
8523589 AAAGCTCCTCTTAACAGAGGCTCAACGACTTTA
66 AAAGCTCCTCTCAACAGAGGCTCAACAACTTTA
* * *
8523622 AAAAATTCATCTTGAAAAAGGTTCCTCTCAGCAGAGGCTCAACAACTTTAAAATC-CATCTT-AA
1 AAAAATTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGGA
* *
8523685 AAAGGTTCCTCTCAACAGAGGCTTAACAACTTTA
66 AAA-GCTCCTCTCAACAGAGGCTCAACAACTTTA
** * * * * * * * *
8523719 AAATTTCTCACCTTGAAAAAAACTCCTCTTAGTAGAGGCTTAACGACGTTAAAA-ATCATCTTGA
1 AAAAAT-TCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG-
* * * *
8523783 AAAAAGCTTCTCTCAGCAAAGGCTCAACAACTTTA
64 GAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTA
** * * *
8523818 AAATCTT-ATTTTG--AAAAGCTCTTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATCT
1 AAAAATTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
8523876 ATTCTTCAAA
Statistics
Matches: 538, Mismatches: 87, Indels: 45
0.80 0.13 0.07
Matches are distributed among these distances:
95 31 0.06
96 52 0.10
97 82 0.15
98 206 0.38
99 154 0.29
100 12 0.02
101 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (98 bp):
AAAAATTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGGA
AAAGCTCCTCTCAACAGAGGCTCAACAACTTTA
Found at i:8523868 original size:146 final size:146
Alignment explanation
Indices: 8523128--8523868 Score: 714
Period size: 146 Copynumber: 5.1 Consensus size: 146
8523118 CTTTTGAAAA
* * * * * *
8523128 TTTAAAA-ATTTATCTTGAAAAGAGCTCCTCTCAGCAGAAGCTCAACAATTTTAAAAAATTCATC
1 TTTAAAATATTCATCTTGAAAAAAACTCCTCTTAGCAGAGGCTCAACAACTTT-AAAAATTCATC
* * * * * *
8523192 TTGAAAAAGGCTCCTCTCAGCAGAGGTTCCATAACTTTAAATTCTCTTTTTAGAAAAGCTCCTT-
65 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTT-GAAAAGCT-CTTC
* * *
8523256 TTAACAGAGGCTCAACAAT
128 TCAGCAGAGGCTCAACAAC
* ** * * *
8523275 TTTAAAAAATTCATCTTGAAAAAGGCTCCTGTTAGCAGAGGCTCAACAA-TTTTAAAATCTCATT
1 TTTAAAATATTCATCTTGAAAAAAACTCCTCTTAGCAGAGGCTCAACAACTTTAAAAAT-TCATC
* * * *
8523339 TTG--AAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAAAT-TCATCTTGGAAAGGGCTCCT
65 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT-TTTGAAA-AGCTCTT
8523401 CTCAGCAGAGGCTCAACAAC
127 CTCAGCAGAGGCTCAACAAC
* * *
8523421 TTTAAAAAATTCATCTT-AAAAAAAGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTCATC
1 TTTAAAATATTCATCTTGAAAAAAA-CTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATTCATC
** * * * *
8523485 TTGAAAAGGGCTCCTTTCAACAGAGGTTCAACAACTTTCAAAAAT-TCATCTTGAAAAAAGCTCT
65 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATTTTG--AAAAGCTCT
* *
8523549 TCTTAGCAGAGGCTCCACAAC
126 TCTCAGCAGAGGCTCAACAAC
* * * * * * *
8523570 TTTAAAATCTT-TTTTTG-GAAAAGCTCCTCTTAACAGAGGCTCAACGACTTTAAAAAATTCATC
1 TTTAAAATATTCATCTTGAAAAAAACTCCTCTTAGCAGAGGCTCAACAACTTT-AAAAATTCATC
* * * * * *
8523633 TTGAAAAAGGTTCCTCTCAGCAGAGGCTCAACAACTTTAAAATC-CATCTTAAAAAGGTTCCTCT
65 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTGAAAA-GCTCTTCT
* *
8523697 CAACAGAGGCTTAACAAC
129 CAGCAGAGGCTCAACAAC
* * * * * *
8523715 TTTAAAATTTCTCACCTTGAAAAAAACTCCTCTTAGTAGAGGCTTAACGACGTTAAAAA-TCATC
1 TTTAAAATAT-TCATCTTGAAAAAAACTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATTCATC
* * *
8523779 TTGAAAAAAGCTTCTCTCAGCAAAGGCTCAACAACTTTAAAATCTTATTTTGAAAAGCTCTTCTC
65 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTGAAAAGCTCTTCTC
*
8523844 AGTAGAGGCTCAACAAC
130 AGCAGAGGCTCAACAAC
8523861 TTTAAAAT
1 TTTAAAAT
8523869 CTCATCTATT
Statistics
Matches: 489, Mismatches: 84, Indels: 43
0.79 0.14 0.07
Matches are distributed among these distances:
144 4 0.01
145 71 0.15
146 161 0.33
147 65 0.13
148 143 0.29
149 42 0.09
150 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (146 bp):
TTTAAAATATTCATCTTGAAAAAAACTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATTCATCT
TGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTGAAAAGCTCTTCTCA
GCAGAGGCTCAACAAC
Found at i:8534490 original size:19 final size:19
Alignment explanation
Indices: 8534459--8534510 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
8534449 AAAAAATATA
*
8534459 TTTTTATTT-TTTT-AGTGT
1 TTTTTATTTGTTTTGAG-AT
*
8534477 TTTTTTTTTGTTTTGAGAT
1 TTTTTATTTGTTTTGAGAT
*
8534496 TTTTTGTTTGTTTTG
1 TTTTTATTTGTTTTG
8534511 TTTTATTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.28
19 19 0.66
20 2 0.07
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (19 bp):
TTTTTATTTGTTTTGAGAT
Found at i:8535742 original size:12 final size:12
Alignment explanation
Indices: 8535701--8535742 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
8535691 CTTTGTTAGA
8535701 AATTTTATTAAT
1 AATTTTATTAAT
*
8535713 TATTTTATTAAT
1 AATTTTATTAAT
*
8535725 ATTTTTATTTAA-
1 AATTTTA-TTAAT
8535737 AATTTT
1 AATTTT
8535743 GAAGAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTTTATTAAT
Found at i:8536164 original size:17 final size:16
Alignment explanation
Indices: 8536121--8536176 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
8536111 CTTTTCTCTC
*
8536121 ATTTTT-TATTACTTT
1 ATTTTTATATTAATTT
* *
8536136 AGTATTATTATTAAATTT
1 ATTTTTA-TATT-AATTT
*
8536154 ATTTTTATATTATTTT
1 ATTTTTATATTAATTT
8536170 ATTTTTA
1 ATTTTTA
8536177 AAGTTTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.12
16 11 0.34
17 8 0.25
18 9 0.28
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTTTTATATTAATTT
Found at i:8536414 original size:38 final size:38
Alignment explanation
Indices: 8536371--8536454 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
8536361 CTCGATCCGA
*
8536371 CGGTTCGGCTC-GTTCTGGGTGGCTCAGCGGTTCGAGCG
1 CGGTTCGACTCGGTT-TGGGTGGCTCAGCGGTTCGAGCG
* * *
8536409 TGGTTCGATTCGGTTTGGGTGGCTCAGCGGTTTGAGCG
1 CGGTTCGACTCGGTTTGGGTGGCTCAGCGGTTCGAGCG
8536447 CGGTTCGA
1 CGGTTCGA
8536455 TTCGATATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 37 0.93
39 3 0.08
ACGTcount: A:0.07, C:0.21, G:0.42, T:0.30
Consensus pattern (38 bp):
CGGTTCGACTCGGTTTGGGTGGCTCAGCGGTTCGAGCG
Found at i:8536455 original size:38 final size:38
Alignment explanation
Indices: 8536386--8536458 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
8536376 CGGCTCGTTC
*
8536386 TGGGTGGCTCAGCGGTTCGAGCGTGGTTCGATTCGGTT
1 TGGGTGGCTCAGCGGTTCGAGCGCGGTTCGATTCGGTT
*
8536424 TGGGTGGCTCAGCGGTTTGAGCGCGGTTCGATTCG
1 TGGGTGGCTCAGCGGTTCGAGCGCGGTTCGATTCG
8536459 ATATGATTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.08, C:0.19, G:0.42, T:0.30
Consensus pattern (38 bp):
TGGGTGGCTCAGCGGTTCGAGCGCGGTTCGATTCGGTT
Found at i:8537359 original size:16 final size:15
Alignment explanation
Indices: 8537327--8537375 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
8537317 CATCCTCGAT
* *
8537327 TTTTTTTGTCTTCTA
1 TTTTTTTGTTTTGTA
*
8537342 TTCTTTTTTTTTTGTA
1 TT-TTTTTGTTTTGTA
8537358 -TTTTTTGTTTTGTA
1 TTTTTTTGTTTTGTA
8537372 TTTT
1 TTTT
8537376 GTATTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 12 0.43
15 6 0.21
16 10 0.36
ACGTcount: A:0.06, C:0.06, G:0.08, T:0.80
Consensus pattern (15 bp):
TTTTTTTGTTTTGTA
Found at i:8537363 original size:30 final size:33
Alignment explanation
Indices: 8537328--8537396 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 33
8537318 ATCCTCGATT
8537328 TTTTTTGTCTTCTATTCTT-T-TT-TTTTT-GTA
1 TTTTTTGTCTTCTATT-TTGTATTATTTTTGGTA
* *
8537358 TTTTTTGTTTTGTATTTTGTATTATTTTTGGTA
1 TTTTTTGTCTTCTATTTTGTATTATTTTTGGTA
8537391 TTTTTT
1 TTTTTT
8537397 TTATTGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 2 0.06
30 15 0.45
31 2 0.06
32 5 0.15
33 9 0.27
ACGTcount: A:0.09, C:0.04, G:0.10, T:0.77
Consensus pattern (33 bp):
TTTTTTGTCTTCTATTTTGTATTATTTTTGGTA
Found at i:8540418 original size:19 final size:19
Alignment explanation
Indices: 8540385--8540424 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8540375 AAATTAAGGA
*
8540385 TAAATTTTATATATATTTT
1 TAAATTTTATATATAATTT
8540404 TAAATTTTA-AGTATAATTT
1 TAAATTTTATA-TATAATTT
8540423 TA
1 TA
8540425 TTTAAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TAAATTTTATATATAATTT
Found at i:8550568 original size:29 final size:30
Alignment explanation
Indices: 8550535--8550621 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 30
8550525 TTATTATTTT
8550535 ATTCAAATAAAATTTTATAATTTTA-TTAC
1 ATTCAAATAAAATTTTATAATTTTATTTAC
* * *
8550564 ATTC-AACAAACTTTTA-AATTTTTATTTGC
1 ATTCAAATAAAATTTTATAA-TTTTATTTAC
*
8550593 AATCAAAT-AAATTTT-TAATCTTTAATTTA
1 ATTCAAATAAAATTTTATAAT-TTT-ATTTA
8550622 TATCTAAGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
27 2 0.04
28 16 0.36
29 21 0.47
30 6 0.13
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.48
Consensus pattern (30 bp):
ATTCAAATAAAATTTTATAATTTTATTTAC
Found at i:8551413 original size:2 final size:2
Alignment explanation
Indices: 8551406--8551433 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8551396 GGCCTTATTC
8551406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8551434 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8551438 original size:2 final size:2
Alignment explanation
Indices: 8551433--8551478 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
8551423 ATATATATAT
8551433 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8551475 AG AG
1 AG AG
8551479 GAATGGATGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8551722 original size:63 final size:64
Alignment explanation
Indices: 8551655--8551789 Score: 245
Period size: 63 Copynumber: 2.1 Consensus size: 64
8551645 CATAATTGAG
8551655 TATATATTCAATATACATATTGAATAGACTTTCGATAATCAC-AGTAAAAAAAATTTATATATA
1 TATATATTCAATATACATATTGAATAGACTTTCGATAATCACAAGTAAAAAAAATTTATATATA
*
8551718 TATATATTCAATATACATATTGAATAGACTTTCGATAATCACAAAGTAGAAAAAATTTATATATA
1 TATATATTCAATATACATATTGAATAGACTTTCGATAATCAC-AAGTAAAAAAAATTTATATATA
8551783 TATATAT
1 TATATAT
8551790 ATATGAATGA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
63 42 0.61
65 27 0.39
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (64 bp):
TATATATTCAATATACATATTGAATAGACTTTCGATAATCACAAGTAAAAAAAATTTATATATA
Found at i:8566412 original size:18 final size:18
Alignment explanation
Indices: 8566363--8566413 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
8566353 AACTATTTGC
* *
8566363 ATATAAATAGATTATTATT
1 ATATAAA-AGATCATAATT
*
8566382 -TAT-AAATATCATAATT
1 ATATAAAAGATCATAATT
8566398 ATATAAAAGATCATAA
1 ATATAAAAGATCATAA
8566414 CTATTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 8 0.31
17 5 0.19
18 13 0.50
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (18 bp):
ATATAAAAGATCATAATT
Found at i:8568635 original size:44 final size:44
Alignment explanation
Indices: 8568572--8568659 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
8568562 TGGGCAATTA
* *
8568572 ATATGCAGTGGAAACTCATGATAACATTTGAGATAGTTGGTTTT
1 ATATGCAGTGAAAACTCATGATAACATTTGAGATAGTTGATTTT
* *
8568616 ATATGCATTGAAAACTCATGATAATATTTGAGATAGTTGATTTT
1 ATATGCAGTGAAAACTCATGATAACATTTGAGATAGTTGATTTT
8568660 TACTAAAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (44 bp):
ATATGCAGTGAAAACTCATGATAACATTTGAGATAGTTGATTTT
Found at i:8581897 original size:22 final size:22
Alignment explanation
Indices: 8581872--8581914 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8581862 ATTTTTTGTC
* * *
8581872 CTTACTTCTAGGGATGCAAATG
1 CTTAATTCTAGAGATACAAATG
8581894 CTTAATTCTAGAGATACAAAT
1 CTTAATTCTAGAGATACAAAT
8581915 ATAAATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATG
Found at i:8585754 original size:24 final size:24
Alignment explanation
Indices: 8585727--8585775 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8585717 TCTAATACCA
8585727 TGTG-AAAAAACTAAGAAATAAAAC
1 TGTGTAAAAAACTAAG-AATAAAAC
* *
8585751 TGTGTGAAAAACTAAGAGTAAAAC
1 TGTGTAAAAAACTAAGAATAAAAC
8585775 T
1 T
8585776 AAATATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.20
Consensus pattern (24 bp):
TGTGTAAAAAACTAAGAATAAAAC
Found at i:8585765 original size:25 final size:25
Alignment explanation
Indices: 8585727--8585775 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
8585717 TCTAATACCA
8585727 TGTGAAAAAACTAAGAAATAAAACTG
1 TGTGAAAAAACTAAG-AATAAAACTG
*
8585753 TGTG-AAAAACTAAGAGTAAAACT
1 TGTGAAAAAACTAAGAATAAAACT
8585776 AAATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.20
Consensus pattern (25 bp):
TGTGAAAAAACTAAGAATAAAACTG
Found at i:8587858 original size:14 final size:14
Alignment explanation
Indices: 8587839--8587865 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8587829 TTTAATGTAT
8587839 CTATAAATTTTAGC
1 CTATAAATTTTAGC
8587853 CTATAAATTTTAG
1 CTATAAATTTTAG
8587866 ATTAAAATAT
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:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (14 bp):
CTATAAATTTTAGC
Found at i:8589093 original size:16 final size:16
Alignment explanation
Indices: 8589072--8589109 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
8589062 TTTCAAAAGT
8589072 TTTTTTAACTTTTTGA
1 TTTTTTAACTTTTTGA
* *
8589088 TTTTTTGATTTTTTGA
1 TTTTTTAACTTTTTGA
8589104 TTTTTT
1 TTTTTT
8589110 GATTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (16 bp):
TTTTTTAACTTTTTGA
Found at i:8589108 original size:24 final size:24
Alignment explanation
Indices: 8589072--8589117 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8589062 TTTCAAAAGT
8589072 TTTTTTAACTTTTTGATTTTTTGA
1 TTTTTTAACTTTTTGATTTTTTGA
* *
8589096 TTTTTTGATTTTTTGATTTTTT
1 TTTTTTAACTTTTTGATTTTTT
8589118 TTATTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.76
Consensus pattern (24 bp):
TTTTTTAACTTTTTGATTTTTTGA
Found at i:8589128 original size:9 final size:8
Alignment explanation
Indices: 8589081--8589117 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
8589071 TTTTTTTAAC
8589081 TTTTTGAT
1 TTTTTGAT
8589089 TTTTTGAT
1 TTTTTGAT
8589097 TTTTTGAT
1 TTTTTGAT
8589105 TTTTTGAT
1 TTTTTGAT
8589113 TTTTT
1 TTTTT
8589118 TTATTCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTTTGAT
Found at i:8590654 original size:13 final size:15
Alignment explanation
Indices: 8590624--8590656 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
8590614 GATAGGCTTC
8590624 TTTCTCTCTTTTTAT
1 TTTCTCTCTTTTTAT
*
8590639 TTTCT-TCTTTTTTT
1 TTTCTCTCTTTTTAT
8590653 TTTC
1 TTTC
8590657 AAATTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTCTCTTTTTAT
Found at i:8592195 original size:18 final size:19
Alignment explanation
Indices: 8592172--8592213 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
8592162 TCCAACAAAC
8592172 AAAAAATATGAAAAAAT-A
1 AAAAAATATGAAAAAATGA
* *
8592190 AAAAAATTTTAAAAAATGA
1 AAAAAATATGAAAAAATGA
8592209 AAAAA
1 AAAAA
8592214 CACAAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAAAATATGAAAAAATGA
Found at i:8592821 original size:28 final size:27
Alignment explanation
Indices: 8592718--8592870 Score: 89
Period size: 28 Copynumber: 5.4 Consensus size: 27
8592708 ATTTTCTTTG
* *
8592718 TTATTAGTATTATTACTATAGTATAGTA
1 TTATTA-TAGTATTATTATAGTATAGTA
8592746 TGTTATTATATGTTATTATTATAGTATA--A
1 --TTATTATA-G-TATTATTATAGTATAGTA
* *
8592775 TGTGTTATAGTACAATATTATAGTATAGTA
1 T-TATTATAGT--ATTATTATAGTATAGTA
* *
8592805 TTATTATTAGTATTATTATACTATATTA
1 TTATTA-TAGTATTATTATAGTATAGTA
* * * *
8592833 TATAGTATAGTA-CATTATATTGTA-TA
1 T-TATTATAGTATTATTATAGTATAGTA
*
8592859 CTATTATAGTAT
1 TTATTATAGTAT
8592871 GATAGTGTTA
Statistics
Matches: 99, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
25 9 0.09
26 3 0.03
27 11 0.11
28 39 0.39
29 11 0.11
30 12 0.12
31 14 0.14
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (27 bp):
TTATTATAGTATTATTATAGTATAGTA
Found at i:8592841 original size:12 final size:13
Alignment explanation
Indices: 8592798--8592870 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 13
8592788 AATATTATAG
8592798 TATAGTATTATTA
1 TATAGTATTATTA
8592811 T-TAGTATTATTA
1 TATAGTATTATTA
8592823 TACTA-TATTATATA
1 TA-TAGTATTAT-TA
*
8592837 GTATAGTA-CATTA
1 -TATAGTATTATTA
* *
8592850 TATTGTA-TACTA
1 TATAGTATTATTA
8592862 TTATAGTAT
1 -TATAGTAT
8592871 GATAGTGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
12 21 0.44
13 15 0.31
14 8 0.17
15 4 0.08
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (13 bp):
TATAGTATTATTA
Found at i:8592915 original size:14 final size:15
Alignment explanation
Indices: 8592896--8592932 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
8592886 TTTATTATTA
8592896 TTATTATACTAT-AT
1 TTATTATACTATAAT
8592910 TTATTATACTATAAT
1 TTATTATACTATAAT
*
8592925 GTATTATA
1 TTATTATA
8592933 TTAGTACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (15 bp):
TTATTATACTATAAT
Found at i:8592948 original size:17 final size:16
Alignment explanation
Indices: 8592818--8592948 Score: 55
Period size: 17 Copynumber: 8.1 Consensus size: 16
8592808 TTATTAGTAT
8592818 TATTATACTA-TATTA
1 TATTATACTATTATTA
* *
8592833 TATAGTATAGTA-CATTA
1 TAT--TATACTATTATTA
8592850 TATTGTATACTATTA-TA
1 TA-T-TATACTATTATTA
* * *
8592867 GTATGATAGTGTTATTA
1 -TATTATACTATTATTA
8592884 T-TT-T--TATTATTA
1 TATTATACTATTATTA
8592896 TTATTATACTA-TATT-
1 -TATTATACTATTATTA
8592911 TATTATACTATAATGTATTA
1 TATTATAC--T-AT-TATTA
8592931 TATTAGTACTATTATTA
1 TATTA-TACTATTATTA
8592948 T
1 T
8592949 TTTTTTATTT
Statistics
Matches: 89, Mismatches: 9, Indels: 34
0.67 0.07 0.26
Matches are distributed among these distances:
12 7 0.08
13 1 0.01
14 11 0.12
15 5 0.06
16 13 0.15
17 33 0.37
18 6 0.07
19 5 0.06
20 5 0.06
21 3 0.03
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (16 bp):
TATTATACTATTATTA
Found at i:8593197 original size:12 final size:12
Alignment explanation
Indices: 8593180--8593204 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8593170 ATTCTGTTCA
8593180 TTTCCTAAAGAT
1 TTTCCTAAAGAT
8593192 TTTCCTAAAGAT
1 TTTCCTAAAGAT
8593204 T
1 T
8593205 GCCTATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTCCTAAAGAT
Found at i:8593765 original size:19 final size:18
Alignment explanation
Indices: 8593741--8593831 Score: 62
Period size: 19 Copynumber: 4.9 Consensus size: 18
8593731 CATGTTTATC
8593741 TTTTTTCATTTTATTTTTA
1 TTTTTT-ATTTTATTTTTA
* *
8593760 TTTTTTGATTTGA-TTTGA
1 TTTTTT-ATTTTATTTTTA
*
8593778 TTTGATTATTTTAAGTTTTTA
1 TTT-TTTATTTT-A-TTTTTA
*
8593799 -TTTTTATTTTATTTCTA
1 TTTTTTATTTTATTTTTA
*
8593816 GTTTTTT-TATTATTTT
1 -TTTTTTATTTTATTTT
8593832 ATTGATCTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
17 5 0.09
18 19 0.34
19 26 0.46
20 2 0.04
21 4 0.07
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTTTATTTTATTTTTA
Found at i:8593828 original size:23 final size:24
Alignment explanation
Indices: 8593783--8593834 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
8593773 TTTGATTTGA
*
8593783 TTATTTTAAGTTTTTATTTTTATT
1 TTATTTTAAGTTTTTATTATTATT
8593807 TTATTTCT-AGTTTTT-TTATTATT
1 TTATTT-TAAGTTTTTATTATTATT
8593830 TTATT
1 TTATT
8593835 GATCTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 12 0.46
24 13 0.50
25 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (24 bp):
TTATTTTAAGTTTTTATTATTATT
Found at i:8597151 original size:17 final size:16
Alignment explanation
Indices: 8597111--8597153 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
8597101 CCATCCAGGC
8597111 CTTTATTTTATTTGGA
1 CTTTATTTTATTTGGA
*
8597127 -TTTCATTTGTTTTTGGA
1 CTTT-ATTT-TATTTGGA
8597144 CTTTATTTTA
1 CTTTATTTTA
8597154 AGCTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
15 3 0.14
16 5 0.23
17 11 0.50
18 3 0.14
ACGTcount: A:0.16, C:0.07, G:0.12, T:0.65
Consensus pattern (16 bp):
CTTTATTTTATTTGGA
Found at i:8597295 original size:21 final size:21
Alignment explanation
Indices: 8597228--8597296 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 21
8597218 ATTATTATCA
8597228 TTATCATTTTATTATCTTTAATTGTT
1 TTAT-ATTTTA-TAT-TTT-ATT-TT
* * **
8597254 TTACATTTTTTATTTGGTTTT
1 TTATATTTTATATTTTATTTT
8597275 TTATATTTTATATTTTATTTT
1 TTATATTTTATATTTTATTTT
8597296 T
1 T
8597297 GTTTAATGGC
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
21 20 0.57
22 2 0.06
23 2 0.06
24 3 0.09
25 5 0.14
26 3 0.09
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTATATTTTATATTTTATTTT
Found at i:8598081 original size:32 final size:32
Alignment explanation
Indices: 8598018--8598085 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
8598008 ATAAGTCATG
* **
8598018 AAAAAAGAATGATCAAGACTGAGTCGCAAGTC
1 AAAAAAGAATGATCAAGACTAAACCGCAAGTC
* *
8598050 AAAAAAGAATGATCAAGATTAAACCGTAAGTC
1 AAAAAAGAATGATCAAGACTAAACCGCAAGTC
8598082 AAAA
1 AAAA
8598086 TATTAAAATG
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:0.53, C:0.13, G:0.18, T:0.16
Consensus pattern (32 bp):
AAAAAAGAATGATCAAGACTAAACCGCAAGTC
Found at i:8599247 original size:10 final size:9
Alignment explanation
Indices: 8599234--8599278 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
8599224 TTTTGTTAGT
8599234 TTTTTTTCTA
1 TTTTTTT-TA
*
8599244 TTTTTTTAA
1 TTTTTTTTA
8599253 TTTTTTTTAA
1 TTTTTTTT-A
8599263 TTTTTCTTTA
1 TTTTT-TTTA
8599273 TTTTTT
1 TTTTTT
8599279 CAAAATTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 9 0.29
10 19 0.61
11 3 0.10
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:8599287 original size:20 final size:20
Alignment explanation
Indices: 8599261--8599301 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8599251 AATTTTTTTT
* *
8599261 AATTTTTCTTTATTTTTTCAA
1 AATTTTCCTTT-TTTCTTCAA
8599282 AATTTTCCTTTTTTCTTCAA
1 AATTTTCCTTTTTTCTTCAA
8599302 GCGAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTTCCTTTTTTCTTCAA
Found at i:8606684 original size:11 final size:12
Alignment explanation
Indices: 8606663--8606711 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
8606653 GAATGCATGG
8606663 TATATTCATTAT
1 TATATTCATTAT
8606675 TATA-TCATTAT
1 TATATTCATTAT
*
8606686 TA-ATTTATTAT
1 TATATTCATTAT
8606697 TAATAATT-ATTAT
1 T-AT-ATTCATTAT
8606710 TA
1 TA
8606712 ATTTGCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
10 1 0.03
11 16 0.50
12 6 0.19
13 6 0.19
14 3 0.09
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATTCATTAT
Found at i:8606708 original size:13 final size:11
Alignment explanation
Indices: 8606681--8606715 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
8606671 TTATTATATC
8606681 ATTATTAATTT
1 ATTATTAATTT
8606692 ATTATTAATAATT
1 ATTATTAAT--TT
8606705 ATTATTAATTT
1 ATTATTAATTT
8606716 GCTTTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATTAATTT
Found at i:8606727 original size:24 final size:24
Alignment explanation
Indices: 8606665--8606728 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
8606655 ATGCATGGTA
*
8606665 TATTCATTATTATATCATTATTAATT
1 TATT-ATTATTA-ATTATTATTAATT
*
8606691 TATTATTAATAATTATTATTAATT
1 TATTATTATTAATTATTATTAATT
*
8606715 TGCTT-TTATTAATT
1 T-ATTATTATTAATT
8606729 TACATGTATG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 21 0.64
25 8 0.24
26 4 0.12
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTATTATTAATTATTATTAATT
Found at i:8609564 original size:19 final size:20
Alignment explanation
Indices: 8609540--8609582 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
8609530 TGAAACATTA
**
8609540 AAATAAAAGGAATTAAAT-C
1 AAATAAAACCAATTAAATCC
8609559 AAATAAAACCAATTAAATCC
1 AAATAAAACCAATTAAATCC
8609579 AAAT
1 AAAT
8609583 TTCAATAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATAAAACCAATTAAATCC
Found at i:8610720 original size:19 final size:20
Alignment explanation
Indices: 8610693--8610751 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
8610683 GGTTTCATTC
8610693 TAGGTTTCACATTAGGGTTT
1 TAGGTTTCACATTAGGGTTT
** * *
8610713 TA-GTTTCATTTTAAGGTGT
1 TAGGTTTCACATTAGGGTTT
*
8610732 AAGGTTTCACATT-GGGTTT
1 TAGGTTTCACATTAGGGTTT
8610751 T
1 T
8610752 GGGATTTCGT
Statistics
Matches: 28, Mismatches: 10, Indels: 3
0.68 0.24 0.07
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.20, C:0.08, G:0.24, T:0.47
Consensus pattern (20 bp):
TAGGTTTCACATTAGGGTTT
Found at i:8610805 original size:19 final size:19
Alignment explanation
Indices: 8610777--8610815 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8610767 GTTTAAGGTA
*
8610777 TCACCAAGGATTTCAAGTT
1 TCACCAAGGATTTAAAGTT
*
8610796 TCACCTAGGATTTAAAGTT
1 TCACCAAGGATTTAAAGTT
8610815 T
1 T
8610816 TATTTTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (19 bp):
TCACCAAGGATTTAAAGTT
Found at i:8610982 original size:3 final size:3
Alignment explanation
Indices: 8610967--8611004 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
8610957 ATCAAAAATT
*
8610967 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8611005 TATTGTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8611340 original size:13 final size:13
Alignment explanation
Indices: 8611322--8611346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8611312 TTACATAAAC
8611322 AGAAAATATGAAA
1 AGAAAATATGAAA
8611335 AGAAAATATGAA
1 AGAAAATATGAA
8611347 GCATTAAAGA
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAAATATGAAA
Found at i:8612567 original size:17 final size:18
Alignment explanation
Indices: 8612535--8612578 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
8612525 TTATTATTTT
8612535 ATATTTTTAAAATTTTAA
1 ATATTTTTAAAATTTTAA
*
8612553 ATATTTTT-AATTTTTAA
1 ATATTTTTAAAATTTTAA
8612570 ATAGTTTTT
1 ATA-TTTTT
8612579 TACATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATATTTTTAAAATTTTAA
Found at i:8612597 original size:21 final size:20
Alignment explanation
Indices: 8612573--8612619 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
8612563 TTTTTAAATA
8612573 GTTTTTTACATTTTTTATTTG
1 GTTTTTT-CATTTTTTATTTG
*
8612594 GTTTTTTTATTTTTTATTTG
1 GTTTTTTCATTTTTTATTTG
8612614 GTTTTT
1 GTTTTT
8612620 GTTTAATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.77
Consensus pattern (20 bp):
GTTTTTTCATTTTTTATTTG
Found at i:8613885 original size:20 final size:19
Alignment explanation
Indices: 8613856--8613893 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
8613846 AGAGAGTTTT
8613856 TAAAAAAAAAGAAACAAAA
1 TAAAAAAAAAGAAACAAAA
*
8613875 TAAAAAGAAAAGAGACAAA
1 TAAAAA-AAAAGAAACAAA
8613894 GAAGTAGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (19 bp):
TAAAAAAAAAGAAACAAAA
Found at i:8614144 original size:33 final size:33
Alignment explanation
Indices: 8614047--8614331 Score: 116
Period size: 33 Copynumber: 8.7 Consensus size: 33
8614037 TAACACACAA
* *
8614047 ATGAGATTTAAGTCC-AATTCAGTTTG-CACCCAG
1 ATGAGATTTAAG-CCTAGTTTAG-TTGACACCCAG
* * * ** *
8614080 AAGAGAATTT-AGCCAAGTTTAATAAATACCCAG
1 ATGAG-ATTTAAGCCTAGTTTAGTTGACACCCAG
*
8614113 ATGAGATTTAAGCTTAGTTTAGTTGACACCCAG
1 ATGAGATTTAAGCCTAGTTTAGTTGACACCCAG
* * * ** *
8614146 ATCA-AATTAAGCCTAGTTTAGTTGGCACTTAT
1 ATGAGATTTAAGCCTAGTTTAGTTGACACCCAG
** * * * * *
8614178 ATGAGATTTAAATCTAGCTTAGCTGGCAACCAA
1 ATGAGATTTAAGCCTAGTTTAGTTGACACCCAG
* * * * * * * *
8614211 ATCA-AATTAAGCCAAATTTAGCTGGCATCCAC
1 ATGAGATTTAAGCCTAGTTTAGTTGACACCCAG
* * * *
8614243 ATGATATTTAAGCCTAGTTTAATTGGCATCCA-
1 ATGAGATTTAAGCCTAGTTTAGTTGACACCCAG
* * * * *
8614275 AAGAAGA-TTAAGCATAATTTAGTTGGCACCTAG
1 ATG-AGATTTAAGCCTAGTTTAGTTGACACCCAG
* *
8614308 ATGAGATTTAAGCCCAATTTAGTT
1 ATGAGATTTAAGCCTAGTTTAGTT
8614332 AGCACATAGA
Statistics
Matches: 187, Mismatches: 56, Indels: 18
0.72 0.21 0.07
Matches are distributed among these distances:
32 80 0.43
33 103 0.55
34 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (33 bp):
ATGAGATTTAAGCCTAGTTTAGTTGACACCCAG
Found at i:8614301 original size:32 final size:33
Alignment explanation
Indices: 8614215--8614302 Score: 83
Period size: 32 Copynumber: 2.7 Consensus size: 33
8614205 AACCAAATCA
* *
8614215 AATTAAGCCA-AATTTAGCTGGCATCCACATGAT
1 AATTAAG-CATAATTTAGTTGGCATCCACAAGAT
* * * *
8614248 ATTTAAGCCTAGTTTAATTGGCATCCA-AAGA-
1 AATTAAGCATAATTTAGTTGGCATCCACAAGAT
8614279 AGATTAAGCATAATTTAGTTGGCA
1 A-ATTAAGCATAATTTAGTTGGCA
8614303 CCTAGATGAG
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
31 1 0.02
32 22 0.51
33 20 0.47
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (33 bp):
AATTAAGCATAATTTAGTTGGCATCCACAAGAT
Found at i:8614319 original size:65 final size:64
Alignment explanation
Indices: 8614111--8614331 Score: 203
Period size: 65 Copynumber: 3.4 Consensus size: 64
8614101 ATAAATACCC
* * * * * * *
8614111 AGATGAGATTTAAGCTTAGTTTAGTTGACACCCAGATCAAATTAAGCCTAGTTTAGTTGGCACTT
1 AGATGAGATTTAAGCCTAGTTTAGTTGGCAACCA-AACAAATTAAGCATAATTTAGTTGGCACCT
* ** * * *
8614176 ATATGAGATTTAAATCTAGCTTAGCTGGCAACCAAATCAAATTAAGCCA-AATTTAGCTGGCATC
1 AGATGAGATTTAAGCCTAGTTTAGTTGGCAACCAAA-CAAATTAAG-CATAATTTAGTTGGCA-C
8614240 C-
63 CT
* * * * *
8614241 ACATGATATTTAAGCCTAGTTTAATTGGCATCCAAAGAAGATTAAGCATAATTTAGTTGGCACCT
1 AGATGAGATTTAAGCCTAGTTTAGTTGGCAACCAAACAA-ATTAAGCATAATTTAGTTGGCACCT
* *
8614306 AGATGAGATTTAAGCCCAATTTAGTT
1 AGATGAGATTTAAGCCTAGTTTAGTT
8614332 AGCACATAGA
Statistics
Matches: 122, Mismatches: 28, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
64 7 0.06
65 113 0.93
66 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (64 bp):
AGATGAGATTTAAGCCTAGTTTAGTTGGCAACCAAACAAATTAAGCATAATTTAGTTGGCACCT
Found at i:8614342 original size:33 final size:33
Alignment explanation
Indices: 8614290--8614388 Score: 117
Period size: 35 Copynumber: 2.9 Consensus size: 33
8614280 GATTAAGCAT
* *
8614290 AATTTAGTTGGCACCTAGATGAGATTTAAGCCC
1 AATTTAGTTAGCACATAGATGAGATTTAAGCCC
* *
8614323 AATTTAGTTAGCACATAGATTGAAATTTTAAGCTC
1 AATTTAGTTAGCACATAGA-TGAGA-TTTAAGCCC
** *
8614358 AATTTAGTTAGCATTTAGATGAGGTTTAAGC
1 AATTTAGTTAGCACATAGATGAGATTTAAGC
8614389 TTAGTTTAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 24 0.43
34 7 0.12
35 25 0.45
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (33 bp):
AATTTAGTTAGCACATAGATGAGATTTAAGCCC
Found at i:8614361 original size:35 final size:34
Alignment explanation
Indices: 8614282--8614432 Score: 110
Period size: 33 Copynumber: 4.4 Consensus size: 34
8614272 CCAAAGAAGA
* * *
8614282 TTAAGCAT-AATTTAGTTGGCACCTAGATGAGA-T
1 TTAAGC-TCAATTTAGTTAGCACATAGATGAAATT
*
8614315 TTAAGCCCAATTTAGTTAGCACATAGATTGAAATT
1 TTAAGCTCAATTTAGTTAGCACATAGA-TGAAATT
** **
8614350 TTAAGCTCAATTTAGTTAGCATTTAGATG-AGGT
1 TTAAGCTCAATTTAGTTAGCACATAGATGAAATT
* * * * * *
8614383 TTAAGCTTAGTTTAATTGGCACATAAATTAAAATT
1 TTAAGCTCAATTTAGTTAGCACATAGA-TGAAATT
**
8614418 TTAAATTCAATTTAG
1 TTAAGCTCAATTTAG
8614433 CTGGCACCCA
Statistics
Matches: 89, Mismatches: 24, Indels: 8
0.74 0.20 0.07
Matches are distributed among these distances:
33 45 0.51
34 7 0.08
35 37 0.42
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (34 bp):
TTAAGCTCAATTTAGTTAGCACATAGATGAAATT
Found at i:8614365 original size:68 final size:68
Alignment explanation
Indices: 8614282--8614440 Score: 176
Period size: 68 Copynumber: 2.3 Consensus size: 68
8614272 CCAAAGAAGA
* * *
8614282 TTAAGCAT-AATTTAGTTGGCACCTAGATGAGATTTAAGCCCAATTTAGTTAGCACATAGATTGA
1 TTAAGC-TCAATTTAGTTGGCACCTAGATGAGATTTAAGCCCAATTTAATTAGCACATAAATTAA
8614346 AATT
65 AATT
* ** * ** * *
8614350 TTAAGCTCAATTTAGTTAGCATTTAGATGAGGTTTAAGCTTAGTTTAATTGGCACATAAATTAAA
1 TTAAGCTCAATTTAGTTGGCACCTAGATGAGATTTAAGCCCAATTTAATTAGCACATAAATTAAA
8614415 ATT
66 ATT
** *
8614418 TTAAATTCAATTTAGCTGGCACC
1 TTAAGCTCAATTTAGTTGGCACC
8614441 CAAATTGAGA
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
67 1 0.01
68 72 0.99
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (68 bp):
TTAAGCTCAATTTAGTTGGCACCTAGATGAGATTTAAGCCCAATTTAATTAGCACATAAATTAAA
ATT
Found at i:8614517 original size:22 final size:22
Alignment explanation
Indices: 8614464--8614514 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
8614454 TAACCTTGCT
8614464 TTAGTTGGCACCTTAAGCCCAAA
1 TTAG-TGGCACCTTAAGCCCAAA
*
8614487 TTAGTGGCACC-TAAGCCCAGA
1 TTAGTGGCACCTTAAGCCCAAA
8614508 TTAGTGG
1 TTAGTGG
8614515 GCATCCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 16 0.59
22 7 0.26
23 4 0.15
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (22 bp):
TTAGTGGCACCTTAAGCCCAAA
Found at i:8614915 original size:46 final size:46
Alignment explanation
Indices: 8614862--8615158 Score: 166
Period size: 46 Copynumber: 6.5 Consensus size: 46
8614852 TTTCATTTAG
* *
8614862 ATTTTTAAATTTATTGAGCCTTTGCATTAAAGCTTTTCAAGATTAA
1 ATTTTTAAATTTGTTGAGCCTTTGCATCAAAGCTTTTCAAGATTAA
* ** ** *
8614908 ATTTTT-AATATTGTCGAGCCTTTGCATTGAAGCAACTT-AAAATTAA
1 ATTTTTAAAT-TTGTTGAGCCTTTGCATCAAAGC-TTTTCAAGATTAA
* * ** * * *
8614954 ACTTTTAAAGTTGTCAAG-CTTT-TATGCAAAGCTTTTTAAGATTAG
1 ATTTTTAAATTTGTTGAGCCTTTGCAT-CAAAGCTTTTCAAGATTAA
* *
8614999 ATTTTT-AATATTGTTGAGCACTTATGC-TGAAA-CTTTTCAAGATTAG
1 ATTTTTAAAT-TTGTTGAGC-CTT-TGCATCAAAGCTTTTCAAGATTAA
* * * * **
8615045 A-TTTTAAAGTTGTTGGGCCCTTGTGC--CAAATCTTCTCAAGATTCG
1 ATTTTTAAATTTGTTGAG-CCTT-TGCATCAAAGCTTTTCAAGATTAA
* * * *
8615090 ATTTTTAAAATTGTCT-AGCCTTTACATCGAAGCTTTTGAAGATTAA
1 ATTTTTAAATTTGT-TGAGCCTTTGCATCAAAGCTTTTCAAGATTAA
* * *
8615136 ATTTTTAAAGTTGTAGAGGCTTT
1 ATTTTTAAATTTGTTGAGCCTTT
8615159 TAAAAAAATA
Statistics
Matches: 192, Mismatches: 41, Indels: 36
0.71 0.15 0.13
Matches are distributed among these distances:
44 11 0.06
45 62 0.32
46 106 0.55
47 11 0.06
48 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (46 bp):
ATTTTTAAATTTGTTGAGCCTTTGCATCAAAGCTTTTCAAGATTAA
Found at i:8615025 original size:45 final size:43
Alignment explanation
Indices: 8614975--8615103 Score: 125
Period size: 45 Copynumber: 2.8 Consensus size: 43
8614965 TGTCAAGCTT
*
8614975 TTATGCAAAGCTTTTTAAGATTAGATTTTTAATATTGTTGAGCAC
1 TTATGCAAA-CTTTTCAAGATTAGATTTTTAA-ATTGTTGAGCAC
* *
8615020 TTATGCTGAAACTTTTCAAGATTAGA-TTTTAAAGTTGTTGGGCCC
1 TTATGC--AAACTTTTCAAGATTAGATTTTTAAA-TTGTTGAGCAC
* * *
8615065 TTGTGCCAAATCTTCTCAAGATTCGATTTTTAAAATTGT
1 TTATG-CAAA-CTTTTCAAGATTAGATTTTT-AAATTGT
8615104 CTAGCCTTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
44 4 0.06
45 38 0.54
46 23 0.32
47 6 0.08
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (43 bp):
TTATGCAAACTTTTCAAGATTAGATTTTTAAATTGTTGAGCAC
Found at i:8615262 original size:46 final size:45
Alignment explanation
Indices: 8615206--8615356 Score: 130
Period size: 46 Copynumber: 3.3 Consensus size: 45
8615196 ATGCCAAAAC
* * *
8615206 TTTTCAAGTTGTTGAGCTTTTAAGTTGAAGTTTTTCAAGATTAGAT
1 TTTTAAAGTTGTTGAGCCTTTAAG-TGAAGATTTTCAAGATTAGAT
**
8615252 TTTTAAAGTTGTTGAGCCACTGCAA-TGAAGCATTTT-AAGATTAGAT
1 TTTTAAAGTTGTTGAG-C-CTTTAAGTGAAG-ATTTTCAAGATTAGAT
* * * *
8615298 TTTCAAAGTTG-TGAAGCCCTTACGCT-AAAACTTTTCAAGATTAGAT
1 TTTTAAAGTTGTTG-AGCCTTTAAG-TGAAGA-TTTTCAAGATTAGAT
8615344 TTTTAAAGTTGTT
1 TTTTAAAGTTGTT
8615357 AAACTCTTGC
Statistics
Matches: 84, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
44 3 0.04
45 9 0.11
46 63 0.75
47 6 0.07
48 3 0.04
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.42
Consensus pattern (45 bp):
TTTTAAAGTTGTTGAGCCTTTAAGTGAAGATTTTCAAGATTAGAT
Found at i:8615382 original size:46 final size:44
Alignment explanation
Indices: 8615238--8615396 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 44
8615228 AGTTGAAGTT
* * * *
8615238 TTTCAAGATTAGATTTTTAAAGTTGTTGAGCCACTGCAATGAAGC
1 TTTCAAGATTAGATTTTTAAAGTTGTTAAGCC-TTGCACTAAAGC
* * * * * *
8615283 ATTTTAAGATTAGATTTTCAAAGTTGTGAAGCCCTTACGCTAAAAC
1 -TTTCAAGATTAGATTTTTAAAGTTGTTAAG-CCTTGCACTAAAGC
* *
8615329 TTTTCAAGATTAGATTTTTAAAGTTGTTAAACTCTTGCACCAAAGC
1 -TTTCAAGATTAGATTTTTAAAGTTGTTAAGC-CTTGCACTAAAGC
*
8615375 TTGTCAAGATTAGGTTTTTAAA
1 TT-TCAAGATTAGATTTTTAAA
8615397 ATTATAGAGT
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
45 3 0.03
46 85 0.94
47 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (44 bp):
TTTCAAGATTAGATTTTTAAAGTTGTTAAGCCTTGCACTAAAGC
Found at i:8624892 original size:14 final size:14
Alignment explanation
Indices: 8624873--8624900 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8624863 TAATCTTTTT
8624873 AACAAAAAAAAAAG
1 AACAAAAAAAAAAG
8624887 AACAAAAAAAAAAG
1 AACAAAAAAAAAAG
8624901 GCCCAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (14 bp):
AACAAAAAAAAAAG
Found at i:8625453 original size:741 final size:741
Alignment explanation
Indices: 8624288--8626506 Score: 4227
Period size: 735 Copynumber: 3.0 Consensus size: 741
8624278 TTTATTGTTC
*
8624288 ACTAATTTTTTTTCTTATGCTTTTAAAGTTTTACCCCTCGCGAATAGCACAACACAAACAATAAC
1 ACTATTTTTTTTTCTTATGCTTTTAAAGTTTTACCCCTCGCGAATAGCACAACACAAACAATAAC
*
8624353 ATTACAATAAAAAATTTACAAGTAAAATGCTTTTGTATACTCACCACTTTGTTTTTTTTTTTTTT
66 ATTACAATAAAAAATTTATAAGTAAAATGCTTTTGTATACTCACCACTTTG-TTTTTTTTTTTTT
*
8624418 TTTTTGCTTAAAACAAAATTAATTAATTTATTGAAAATGTCTGTAATTAAGTACTCGCTAGATGT
130 TTTTTGCTTAAAACAAAATTAATTAATTTATTGAAAATGTCTGCAATTAAGTACTCGCTAGATGT
*
8624483 TAGACAAAAGCAGGGTACTATCGCACTGATAAGAACCTTAGTGCCACTTTCCTTTTGGTGCCCCA
195 TAGACAAAAGCAGGGTACTATCGCACTAATAAGAACCTTAGTGCCACTTTCCTTTTGGTGCCCCA
8624548 CTAATTAAGATAAAGAAAAAAAAAAGCTAAATGCTCAATTTGAAATTAAACGCTTGGATGGTTGC
260 CTAATTAAGATAAAGAAAAAAAAAAGCTAAATGCTCAATTTGAAATTAAACGCTTGGATGGTTGC
8624613 TCAATTCAGGACTAAACATTTCAATTTATATAAATATGGATAAAACGTTATTGACTTGTAACAAT
325 TCAATTCAGGACTAAACATTTCAATTTATATAAATATGGATAAAACGTTATTGACTTGTAACAAT
* *
8624678 ATAAGATATTTTTAAATAGAAATTTTGTTGTGAAAGACATGCACAGTAACAACGCGTAAAAAGAT
390 ATAAGATTTTTTTAAATAGAAATTTTGTTGTGAAAGACATGCGCAGTAACAACGCGTAAAAAGAT
8624743 TAAAAGCCAGTTGATCTAACACTTTAATACTGATTTGAATTTCTTCTTATTCTTGCAAAATGAGA
455 TAAAAGCCAGTTGATCTAACACTTTAATACTGATTTGAATTTCTTCTTATTCTTGCAAAATGAGA
8624808 AAAATGAAACATTTTTTAGCAAGAAAAAGCTGTAAAGCTTCAATCTTTTGAACTTTAATCTTTTT
520 AAAATGAAACATTTTTTAGCAAGAAAAAGCTGTAAAGCTTCAATCTTTTGAACTTTAATCTTTTT
8624873 AACAAAAAAAAAAGAACAAAAAAAAAAGGCCCAATCATTTACCTCTCTCTTGATCTTGTGCTTAA
585 AACAAAAAAAAAAGAACAAAAAAAAAAGGCCCAATCATTTACCTCTCTCTTGATCTTGTGCTTAA
8624938 GATTGCAGGTTTCTTGAAGGAAGGATACCAATAGGCCTTGAAACCTCATACTATTGAACAAATTG
650 GATTGCAGGTTTCTTGAAGGAAGGATACCAATAGGCCTTGAAACCTCATACTATTGAACAAATTG
8625003 TTATATATGTTATCATTGATGTAATGG
715 TTATATATGTTATCATTGATGTAATGG
8625030 ACTATTTTTTTTTCTTATGCTTTTAAAGTTTTACCCCTCGCGAATAGCACAACACAAACAATAAC
1 ACTATTTTTTTTTCTTATGCTTTTAAAGTTTTACCCCTCGCGAATAGCACAACACAAACAATAAC
8625095 ATTACAATAAAAAATTTATAAGTAAAATGCTTTTGTATACTCACCACTTTGTTTTTTTTTTTTTT
66 ATTACAATAAAAAATTTATAAGTAAAATGCTTTTGTATACTCACCACTTTGTTTTTTTTTTTTTT
8625160 TTTTGCTTAAAACAAAATTAATTAATTTATTGAAAATGTCTGCAATTAAGTACTCGCTAGATGTT
131 TTTTGCTTAAAACAAAATTAATTAATTTATTGAAAATGTCTGCAATTAAGTACTCGCTAGATGTT
8625225 AGACAAAAGCAGGGTACTATCGCACTAATAAGAACCTTAGTGCCACTTTCCTTTTGGTGCCCCAC
196 AGACAAAAGCAGGGTACTATCGCACTAATAAGAACCTTAGTGCCACTTTCCTTTTGGTGCCCCAC
8625290 TAATTAAGATAAAGAAAAAAAAAAGCTAAATGCTCAATTTGAAATTAAACGCTTGGATGGTTGCT
261 TAATTAAGATAAAGAAAAAAAAAAGCTAAATGCTCAATTTGAAATTAAACGCTTGGATGGTTGCT
8625355 CAATTCAGGACTAAACATTTCAATTTATATAAATATGGATAAAACGTTATTGACTTGTAACAATA
326 CAATTCAGGACTAAACATTTCAATTTATATAAATATGGATAAAACGTTATTGACTTGTAACAATA
8625420 TAAGATTTTTTTAAATAGAAATTTTGTTGTGAAAGACATGCGCAGTAACAACGCGTAAAAAGATT
391 TAAGATTTTTTTAAATAGAAATTTTGTTGTGAAAGACATGCGCAGTAACAACGCGTAAAAAGATT
8625485 AAAAGCCAGTTGATCTAACACTTTAATACTGATTTGAATTTCTTCTTATTCTTGCAAAATGAGAA
456 AAAAGCCAGTTGATCTAACACTTTAATACTGATTTGAATTTCTTCTTATTCTTGCAAAATGAGAA
8625550 AAATGAAACATTTTTTAGCAAGAAAAAGCTGTAAAGCTTCAATCTTTTGAACTTTAATCTTTTTA
521 AAATGAAACATTTTTTAGCAAGAAAAAGCTGTAAAGCTTCAATCTTTTGAACTTTAATCTTTTTA
8625615 AC-AAAAAAAAAGAAC-AAAAAAAAAGGCCCAATCATTTACCTCTCTCTTGATCTTGTGCTTAAG
586 ACAAAAAAAAAAGAACAAAAAAAAAAGGCCCAATCATTTACCTCTCTCTTGATCTTGTGCTTAAG
8625678 ATTGCAGGTTTCTTGAAGGAAGGATACCAATAGGCCTTGAAACCTCATACTATTGAACAAATTGT
651 ATTGCAGGTTTCTTGAAGGAAGGATACCAATAGGCCTTGAAACCTCATACTATTGAACAAATTGT
8625743 TATATATGTTATCATTGATGTAATGG
716 TATATATGTTATCATTGATGTAATGG
8625769 ACTATTTTTTTTTCTTATGCTTTTAAAGTTTTACCCCTCGCGAATAGCACAACACAAACAATAAC
1 ACTATTTTTTTTTCTTATGCTTTTAAAGTTTTACCCCTCGCGAATAGCACAACACAAACAATAAC
*
8625834 ATTACAATAAAAAATTTATAAGTAAAATGCTTTTGTATACTCACCA----GTTTGTTTTTTTTTT
66 ATTACAATAAAAAATTTATAAGTAAAATGCTTTTGTATACTCACCACTTTGTTTTTTTTTTTTTT
* *
8625895 TTTTGCTTAAAACAAAATTAATTAATTTATTGAAAATGTTTGCAATTAAGTACTCGCTCGATGTT
131 TTTTGCTTAAAACAAAATTAATTAATTTATTGAAAATGTCTGCAATTAAGTACTCGCTAGATGTT
* *
8625960 AGACAAAAGCAGGGTACTATTGCACTAATAAGAACCTTAGTGCCACTTTCCTTTTGGTGCCTCAC
196 AGACAAAAGCAGGGTACTATCGCACTAATAAGAACCTTAGTGCCACTTTCCTTTTGGTGCCCCAC
8626025 TAATTAAGATAAAGAAAAAAAAAAGCTAAATGCTCAATTTGAAATTAAACGCTTGGATGGTTGCT
261 TAATTAAGATAAAGAAAAAAAAAAGCTAAATGCTCAATTTGAAATTAAACGCTTGGATGGTTGCT
8626090 CAATTCAGGACTAAACATTTCAATTTATATAAATATGGATAAAACGTTATTGACTTGTAACAATA
326 CAATTCAGGACTAAACATTTCAATTTATATAAATATGGATAAAACGTTATTGACTTGTAACAATA
* *
8626155 TAAGATTTTTTTAAATAGAAATTTTGTTGTGAAAGACATGCGTAGTAACAAAGCGTAAAAAGATT
391 TAAGATTTTTTTAAATAGAAATTTTGTTGTGAAAGACATGCGCAGTAACAACGCGTAAAAAGATT
8626220 AAAAGCCAGTTGATCTAACACTTTAATACTGATTTGAATTTCTTCTTATTCTTGCAAAATGAGAA
456 AAAAGCCAGTTGATCTAACACTTTAATACTGATTTGAATTTCTTCTTATTCTTGCAAAATGAGAA
8626285 AAATGAAACATTTTTTAGCAAGAAAAAGCTGTAAAGCTTCAATCTTTTGAACTTTAATCTTTTTA
521 AAATGAAACATTTTTTAGCAAGAAAAAGCTGTAAAGCTTCAATCTTTTGAACTTTAATCTTTTTA
*
8626350 ACAAAAAAAAAA-ACCAAAAAAAAAAAGGCCCAATCATTTACCTCTCTCTTGATCTTGTGCTTAA
586 ACAAAAAAAAAAGAAC-AAAAAAAAAAGGCCCAATCATTTACCTCTCTCTTGATCTTGTGCTTAA
*
8626414 GATTGCAGGTTTCTTGAAGGAAGGATACCAATAGGCCTTGGAACCTCATACTATTGAACAAATTG
650 GATTGCAGGTTTCTTGAAGGAAGGATACCAATAGGCCTTGAAACCTCATACTATTGAACAAATTG
*
8626479 TTATATCTGTTATCATTGATGTAATGG
715 TTATATATGTTATCATTGATGTAATGG
8626506 A
1 A
8626507 TTAATTTGTT
Statistics
Matches: 1458, Mismatches: 16, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
735 467 0.32
736 9 0.01
737 138 0.09
739 250 0.17
740 13 0.01
741 467 0.32
742 114 0.08
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (741 bp):
ACTATTTTTTTTTCTTATGCTTTTAAAGTTTTACCCCTCGCGAATAGCACAACACAAACAATAAC
ATTACAATAAAAAATTTATAAGTAAAATGCTTTTGTATACTCACCACTTTGTTTTTTTTTTTTTT
TTTTGCTTAAAACAAAATTAATTAATTTATTGAAAATGTCTGCAATTAAGTACTCGCTAGATGTT
AGACAAAAGCAGGGTACTATCGCACTAATAAGAACCTTAGTGCCACTTTCCTTTTGGTGCCCCAC
TAATTAAGATAAAGAAAAAAAAAAGCTAAATGCTCAATTTGAAATTAAACGCTTGGATGGTTGCT
CAATTCAGGACTAAACATTTCAATTTATATAAATATGGATAAAACGTTATTGACTTGTAACAATA
TAAGATTTTTTTAAATAGAAATTTTGTTGTGAAAGACATGCGCAGTAACAACGCGTAAAAAGATT
AAAAGCCAGTTGATCTAACACTTTAATACTGATTTGAATTTCTTCTTATTCTTGCAAAATGAGAA
AAATGAAACATTTTTTAGCAAGAAAAAGCTGTAAAGCTTCAATCTTTTGAACTTTAATCTTTTTA
ACAAAAAAAAAAGAACAAAAAAAAAAGGCCCAATCATTTACCTCTCTCTTGATCTTGTGCTTAAG
ATTGCAGGTTTCTTGAAGGAAGGATACCAATAGGCCTTGAAACCTCATACTATTGAACAAATTGT
TATATATGTTATCATTGATGTAATGG
Found at i:8625632 original size:13 final size:13
Alignment explanation
Indices: 8625614--8625639 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8625604 TAATCTTTTT
8625614 AACAAAAAAAAAG
1 AACAAAAAAAAAG
8625627 AACAAAAAAAAAG
1 AACAAAAAAAAAG
8625640 GCCCAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (13 bp):
AACAAAAAAAAAG
Found at i:8626382 original size:16 final size:13
Alignment explanation
Indices: 8626351--8626375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8626341 ATCTTTTTAA
8626351 CAAAAAAAAAAAC
1 CAAAAAAAAAAAC
8626364 CAAAAAAAAAAA
1 CAAAAAAAAAAA
8626376 GGCCCAATCA
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAC
Found at i:8628137 original size:2 final size:2
Alignment explanation
Indices: 8628130--8628156 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8628120 GTCAAAAATA
8628130 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 A
8628157 ACTTATAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8630106 original size:58 final size:56
Alignment explanation
Indices: 8629949--8630112 Score: 132
Period size: 58 Copynumber: 2.9 Consensus size: 56
8629939 CCCTCTTATA
* * ** * * * * *
8629949 TTAAATGACAAAAATACCCTTCTTTTAAATGATAAATGGCTATAATGCCCTTTTTTT
1 TTAAATGACAAAAATACCC-TCTTATAAATGACAAATCACTATAATACCATTATGTC
* * * * *
8630006 TTAAATAACAAAAATACCCCTTTTGTAAAT-ATCAACTCACTATAGTACACATTATGTC
1 TTAAATGACAAAAATA-CCCTCTTATAAATGA-CAAATCACTATAATAC-CATTATGTC
* *
8630064 TTAAATGACAAAAATACCTCTCTTATAAATGACAAATTACTATGATACC
1 TTAAATGACAAAAATACC-CTCTTATAAATGACAAATCACTATAATACC
8630113 TCTCTTATAA
Statistics
Matches: 82, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
56 1 0.01
57 36 0.44
58 44 0.54
59 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (56 bp):
TTAAATGACAAAAATACCCTCTTATAAATGACAAATCACTATAATACCATTATGTC
Found at i:8630112 original size:31 final size:31
Alignment explanation
Indices: 8630077--8630144 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
8630067 AATGACAAAA
*
8630077 ATACCTCTCTTATAAATGACAAATTACTATG
1 ATACCTCTCTTATAAATAACAAATTACTATG
8630108 ATACCTCTCTTATAAATAACAAATTACTATG
1 ATACCTCTCTTATAAATAACAAATTACTATG
8630139 ATACCT
1 ATACCT
8630145 TTATGTCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (31 bp):
ATACCTCTCTTATAAATAACAAATTACTATG
Found at i:8631106 original size:23 final size:23
Alignment explanation
Indices: 8631057--8631118 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
8631047 CTTCAACCAT
* * *
8631057 AATTACAAAAATACTCCTACATT
1 AATTACAAAAATACCCCAACATA
8631080 AATTACAAAAATATCCCCAACA-A
1 AATTACAAAAATA-CCCCAACATA
**
8631103 AATTACATTAATACCC
1 AATTACAAAAATACCC
8631119 TTCTGATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 3 0.09
23 24 0.73
24 6 0.18
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTACAAAAATACCCCAACATA
Found at i:8633598 original size:24 final size:24
Alignment explanation
Indices: 8633566--8633611 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
8633556 TCGAATGATA
8633566 GTTTTCTTTCTTCTTACTCAAGTG
1 GTTTTCTTTCTTCTTACTCAAGTG
8633590 GTTTTCTTTCTTCTTACTCAAG
1 GTTTTCTTTCTTCTTACTCAAG
8633612 CTGTAGGTCA
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:0.13, C:0.22, G:0.11, T:0.54
Consensus pattern (24 bp):
GTTTTCTTTCTTCTTACTCAAGTG
Found at i:8636576 original size:18 final size:19
Alignment explanation
Indices: 8636549--8636589 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
8636539 TTACATCTTC
* *
8636549 AAAAATTATTTT-TCAAAA
1 AAAAAATATTTTCCCAAAA
8636567 AAAAAATATTTTCCCAAAA
1 AAAAAATATTTTCCCAAAA
8636586 AAAA
1 AAAA
8636590 GAAAAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAATATTTTCCCAAAA
Found at i:8637314 original size:9 final size:8
Alignment explanation
Indices: 8637292--8637358 Score: 64
Period size: 8 Copynumber: 8.1 Consensus size: 8
8637282 AGCAGTAGGT
8637292 AAAAAAAG
1 AAAAAAAG
*
8637300 AGAAAAATG
1 A-AAAAAAG
*
8637309 AAAAAATG
1 AAAAAAAG
*
8637317 AAAAGAAG
1 AAAAAAAG
8637325 AAAAAAA-
1 AAAAAAAG
8637332 AGAAAAAAG
1 A-AAAAAAG
8637341 AAAAAATAG
1 AAAAAA-AG
*
8637350 ATAAAAAG
1 AAAAAAAG
8637358 A
1 A
8637359 CACATCTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
7 1 0.02
8 34 0.68
9 15 0.30
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (8 bp):
AAAAAAAG
Found at i:8637320 original size:25 final size:24
Alignment explanation
Indices: 8637292--8637356 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
8637282 AGCAGTAGGT
* *
8637292 AAAAAAAGAGAAAAATGAAAAAATG
1 AAAAAAAGAAAAAAAAGAAAAAA-G
*
8637317 AAAAGAAGAAAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAAAGAAAAAAG
*
8637341 AAAAAATAGATAAAAA
1 AAAAAA-AGAAAAAAA
8637357 GACACATCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 6 0.18
25 28 0.82
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (24 bp):
AAAAAAAGAAAAAAAAGAAAAAAG
Found at i:8637334 original size:12 final size:12
Alignment explanation
Indices: 8637303--8637344 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
8637293 AAAAAAGAGA
8637303 AAAATGAAAAAATG
1 AAAA-GAAAAAA-G
8637317 AAAAGAAGAAAA-
1 AAAAGAA-AAAAG
8637329 AAAAGAAAAAAG
1 AAAAGAAAAAAG
8637341 AAAA
1 AAAA
8637345 AATAGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.15
12 11 0.42
13 3 0.12
14 8 0.31
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:8637355 original size:16 final size:16
Alignment explanation
Indices: 8637293--8637358 Score: 80
Period size: 16 Copynumber: 4.1 Consensus size: 16
8637283 GCAGTAGGTA
* *
8637293 AAAAAAGAGAAAAATG
1 AAAAAATAGAAAAAAG
8637309 AAAAAAT-GAAAAGAAG
1 AAAAAATAGAAAA-AAG
*
8637325 AAAAAAAAGAAAAAAG
1 AAAAAATAGAAAAAAG
8637341 AAAAAATAGATAAAAAG
1 AAAAAATAGA-AAAAAG
8637358 A
1 A
8637359 CACATCTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
15 5 0.12
16 26 0.60
17 12 0.28
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (16 bp):
AAAAAATAGAAAAAAG
Found at i:8639995 original size:129 final size:130
Alignment explanation
Indices: 8639593--8640004 Score: 382
Period size: 133 Copynumber: 3.1 Consensus size: 130
8639583 TGGAATCCCA
* * * * * * * * *
8639593 AGAATTTAAAAAAGTAGATTACTAAAAATGAAATCAAATGGTTCAAAAAAAAAAGAAAAAAAAAG
1 AGAATTCAAGAAAGTTGATTATTAAAAATAAAATCCAAT-ATTCAAAAAAAAAAG--GAGAAAAG
* * ** * * *
8639658 CAAAGAAAGAAAGACATGTACCTTGAAAATGAAAGTTTGGGGTAAAAGGTGAATGAAGCTTCTAG
63 CAAAGAAAGAAAGAAATGCA-CTAAAAAATG-AAGTTTGGGGCAAAAAGTGAATGAAGCTTCAAG
8639723 AAAAT
126 AAAAT
* * *
8639728 AGAATTCAAGAAAGTTGATTATTAAAAATGAAGTCCAATATTCAAAAAAAAAAATGAGAAAAGCA
1 AGAATTCAAGAAAGTTGATTATTAAAAATAAAATCCAATATTC-AAAAAAAAAAGGAGAAAAGCA
* ** *
8639793 AGGAAAGAAAGAAATGCACCTAAAAAATGAATGTTTAAGGCAAAAAGTGAATGAAGCTTCAGGAA
65 AAGAAAGAAAGAAATGCA-CTAAAAAATGAA-GTTTGGGGCAAAAAGTGAATGAAGCTTCAAGAA
8639858 AAT
128 AAT
* * * * * *
8639861 AGAATTCAAGAAAGTTGATTGTTAAAGATAAAAT-CATATATTC-CAAAAAAAGGGGGAAAAGTA
1 AGAATTCAAGAAAGTTGATTATTAAAAATAAAATCCA-ATATTCAAAAAAAAAAGGAGAAAAGCA
* * * * *
8639924 AAGAAAGAAAGCAA-GCA-TATCAGAATGAGAGTTTGGGGCAAAAAATGAATAAAGCTTCAAGAA
65 AAGAAAGAAAGAAATGCACTA-AAAAATGA-AGTTTGGGGCAAAAAGTGAATGAAGCTTCAAGAA
8639987 AAT
128 AAT
*
8639990 AGAATTGAAGAAAGT
1 AGAATTCAAGAAAGT
8640005 ATAATGCTAA
Statistics
Matches: 232, Mismatches: 40, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
128 2 0.01
129 51 0.22
130 4 0.02
131 27 0.12
132 4 0.02
133 98 0.42
134 3 0.01
135 43 0.19
ACGTcount: A:0.53, C:0.07, G:0.19, T:0.20
Consensus pattern (130 bp):
AGAATTCAAGAAAGTTGATTATTAAAAATAAAATCCAATATTCAAAAAAAAAAGGAGAAAAGCAA
AGAAAGAAAGAAATGCACTAAAAAATGAAGTTTGGGGCAAAAAGTGAATGAAGCTTCAAGAAAAT
Found at i:8640402 original size:50 final size:50
Alignment explanation
Indices: 8640348--8640449 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
8640338 CTACATTACA
*
8640348 TACCTTGAAAAGTCGATTTTGATCAAATATGGACACTTGAATTGAAAAGC
1 TACCTTGAAAAGTCCATTTTGATCAAATATGGACACTTGAATTGAAAAGC
* *
8640398 TACCTTGAAAAGTCCATTTTGATCAAATATGGATACTTGAATTGAAGAGC
1 TACCTTGAAAAGTCCATTTTGATCAAATATGGACACTTGAATTGAAAAGC
8640448 TA
1 TA
8640450 TGTCATTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (50 bp):
TACCTTGAAAAGTCCATTTTGATCAAATATGGACACTTGAATTGAAAAGC
Found at i:8641512 original size:41 final size:41
Alignment explanation
Indices: 8641463--8641639 Score: 108
Period size: 41 Copynumber: 4.6 Consensus size: 41
8641453 TACAAAAAAA
8641463 AAAAAAGACATTCGCATTTGCATCACTTGCATGTGCATCAT
1 AAAAAAGACATTCGCATTTGCATCACTTGCATGTGCATCAT
* * *
8641504 GAGAAAGACATT-GGATTT--A-CA--TGC-TGT--A--A-
1 AAAAAAGACATTCGCATTTGCATCACTTGCATGTGCATCAT
* * * * *
8641533 AAAAAAGATATTCGTATTTGCATCATTTGCATCTGTATCAT
1 AAAAAAGACATTCGCATTTGCATCACTTGCATGTGCATCAT
* * * * *
8641574 AAAAAAAACATTTGTATTTGCATCACTTGCATATGCATTAT
1 AAAAAAGACATTCGCATTTGCATCACTTGCATGTGCATCAT
* * * * *
8641615 GAGATAGACATTTGCATTTACATCA
1 AAAAAAGACATTCGCATTTGCATCA
8641640 TCTGCATCTT
Statistics
Matches: 103, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
29 9 0.09
30 6 0.06
32 2 0.02
33 2 0.02
34 3 0.03
35 6 0.06
36 2 0.02
37 2 0.02
38 2 0.02
40 6 0.06
41 63 0.61
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (41 bp):
AAAAAAGACATTCGCATTTGCATCACTTGCATGTGCATCAT
Found at i:8642358 original size:104 final size:104
Alignment explanation
Indices: 8642127--8642452 Score: 365
Period size: 105 Copynumber: 3.1 Consensus size: 104
8642117 AGCACCCAAG
* * * * *
8642127 ATAAT-TTTCAAGACCTCCAAGTAAAATATTTTAAATTTTTAAAGTTTTAATGCCTCTAACT-AG
1 ATAATCTTT-AAGACCTCCAAGCAAAATATTTTAAA-TTTCAAAGTTTCAATGCCTCTAATTGGG
* * * *
8642190 AGGAGCATT-TAAGATGTCAAGATTTATAAAACCTTC-GAGC
64 AGGAGCATTCAAAGATGTCAAGATTTGTAAGACTTTCAG-GC
* * * *
8642230 ATAATTTTTAAGACCTCCAAGCAAAACATTTTAAATTTCAAAGTTTCAATGTCTTTAATTGGGAG
1 ATAATCTTTAAGACCTCCAAGCAAAATATTTTAAATTTCAAAGTTTCAATGCCTCTAATTGGGAG
* *
8642295 GAGCATTCAAAGATGACAAGATTTGTAAGATTTTCAGGC
66 GAGCATTCAAAGATGTCAAGATTTGTAAGACTTTCAGGC
* * * *
8642334 ATAATCTCTAAGACCTTCAGGCAAAATATTTTAAGATTTCAAAGTTTCAATGCCTCTGATTAGGG
1 ATAATCTTTAAGACCTCCAAGCAAAATATTTTAA-ATTTCAAAGTTTCAATGCCTCTAATT-GGG
* * **
8642399 -GGAACATTCAAAGATTTTGAGATTTGTAAGACTTTCAGGC
64 AGGAGCATTCAAAGATGTCAAGATTTGTAAGACTTTCAGGC
8642439 ATAATCTTTAAGAC
1 ATAATCTTTAAGAC
8642453 ATCTGGGCAT
Statistics
Matches: 188, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
102 20 0.11
103 39 0.21
104 55 0.29
105 71 0.38
106 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (104 bp):
ATAATCTTTAAGACCTCCAAGCAAAATATTTTAAATTTCAAAGTTTCAATGCCTCTAATTGGGAG
GAGCATTCAAAGATGTCAAGATTTGTAAGACTTTCAGGC
Done.