Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 102 of 316
Found at i:31741495 original size:20 final size:21
Alignment explanation
Indices: 31741456--31741495 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31741446 AAATTAATGG
*
31741456 CTACACGAGCGTGTTGCCCTT
1 CTACACGAGCATGTTGCCCTT
*
31741477 CTACACGGGCATG-TGCCCT
1 CTACACGAGCATGTTGCCCT
31741496 GTTCCAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (21 bp):
CTACACGAGCATGTTGCCCTT
Found at i:31746294 original size:18 final size:18
Alignment explanation
Indices: 31746271--31746306 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31746261 TAAACATATG
31746271 ATAGTTTAGCCGATTTTA
1 ATAGTTTAGCCGATTTTA
*
31746289 ATAGTTTCGCCGATTTTA
1 ATAGTTTAGCCGATTTTA
31746307 TCTTCTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (18 bp):
ATAGTTTAGCCGATTTTA
Found at i:31752792 original size:13 final size:13
Alignment explanation
Indices: 31752774--31752798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31752764 TAAGATGAGT
31752774 TTGCTTATGTTTG
1 TTGCTTATGTTTG
31752787 TTGCTTATGTTT
1 TTGCTTATGTTT
31752799 TGAATCCTAG
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:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (13 bp):
TTGCTTATGTTTG
Found at i:31753763 original size:36 final size:37
Alignment explanation
Indices: 31753708--31753804 Score: 178
Period size: 36 Copynumber: 2.6 Consensus size: 37
31753698 TGTTAATTTC
31753708 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
31753745 AAGACTTATGTAAT-TTTTTTATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
31753781 AAGACTTATGTAATGTTTTTAATT
1 AAGACTTATGTAATGTTTTTAATT
31753805 CGGTTAATTC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
36 35 0.61
37 22 0.39
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.48
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:31753811 original size:9 final size:9
Alignment explanation
Indices: 31753799--31753867 Score: 102
Period size: 9 Copynumber: 7.7 Consensus size: 9
31753789 TGTAATGTTT
31753799 TTAATTCGG
1 TTAATTCGG
31753808 TTAATTCGG
1 TTAATTCGG
**
31753817 TTAATTAAG
1 TTAATTCGG
31753826 TTAATTCGG
1 TTAATTCGG
*
31753835 TTAATTCGA
1 TTAATTCGG
31753844 TTAATTCGG
1 TTAATTCGG
*
31753853 TTAATTCAG
1 TTAATTCGG
31753862 TTAATT
1 TTAATT
31753868 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (9 bp):
TTAATTCGG
Found at i:31754159 original size:27 final size:27
Alignment explanation
Indices: 31754137--31754251 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
31754127 AGAATTACTG
*
31754137 AAATACCTTTTGTTTACAAAATTACCA
1 AAATACCTTTGGTTTACAAAATTACCA
* * *
31754164 AAATACC-CTCGATTAGCAAAATTACCA
1 AAATACCTTTGGTTTA-CAAAATTACCA
* **
31754191 AAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCTTTGGTTTACAAAATTACCA
**
31754218 AAATACCTTTGGTTTGTAAAATTACCA
1 AAATACCTTTGGTTTACAAAATTACCA
31754245 AAATACC
1 AAATACC
31754252 CCTAATTTGT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.06
27 68 0.88
28 4 0.05
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATACCTTTGGTTTACAAAATTACCA
Found at i:31754195 original size:54 final size:54
Alignment explanation
Indices: 31754137--31754414 Score: 170
Period size: 54 Copynumber: 5.1 Consensus size: 54
31754127 AGAATTACTG
* *
31754137 AAATACCTTTTGTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACCA
** * * * * *
31754191 AAATACCCTTGGTTTGTAAAATTACCAAAATACCTTTGGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACCA
* ** *** * * * *
31754245 AAATACCCCTAATTTGTGAAATTATCAAAATACCCTTGACTT-GTAAAATTACCG
1 AAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TTAGCAAAATTACCA
*** ** * * * *
31754299 AAATACCCTCAATTTGTAAAGTTACCAAAATACCC-CTAATTTGGAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCAAAATACCCTC-GATTAGCAAAATTACCA
* ** * * *
31754353 AAATACCCTTGATTTGGAAATTTACAAAAATATCCCT-GATTTA-CAAAA-TAACA
1 AAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGA-TTAGCAAAATTACCA
31754406 GAAATACCC
1 -AAATACCC
31754415 ATGACTTTCA
Statistics
Matches: 182, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
53 6 0.03
54 169 0.93
55 7 0.04
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACCA
Found at i:31754239 original size:81 final size:81
Alignment explanation
Indices: 31754137--31754384 Score: 300
Period size: 81 Copynumber: 3.1 Consensus size: 81
31754127 AGAATTACTG
* ** * *
31754137 AAATACCTTTTGTTTACAAAATTACCAAAATA-CCCTCGATTAGCAAAATTACCAAAATACCCTT
1 AAATACCTTTAGTTTGTAAAATTACCAAAATACCCCT-AATTTGCAAAATTACCAAAATACCCTT
*
31754201 GGTTTGTAAAATTACCA
65 GATTTGTAAAATTACCA
* ** *
31754218 AAATACCTTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTATCAAAATACCCTTG
1 AAATACCTTTAGTTTGTAAAATTACCAAAATACCCCTAATTTGCAAAATTACCAAAATACCCTTG
* *
31754283 ACTTGTAAAATTACCG
66 ATTTGTAAAATTACCA
* * * * *
31754299 AAATACCCTCAATTTGTAAAGTTACCAAAATACCCCTAATTTGGAAAATTACCAAAATACCCTTG
1 AAATACCTTTAGTTTGTAAAATTACCAAAATACCCCTAATTTGCAAAATTACCAAAATACCCTTG
* * *
31754364 ATTTGGAAATTTACAA
66 ATTTGTAAAATTACCA
31754380 AAATA
1 AAATA
31754385 TCCCTGATTT
Statistics
Matches: 142, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 138 0.97
82 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATACCTTTAGTTTGTAAAATTACCAAAATACCCCTAATTTGCAAAATTACCAAAATACCCTTG
ATTTGTAAAATTACCA
Found at i:31754260 original size:27 final size:27
Alignment explanation
Indices: 31754154--31754394 Score: 252
Period size: 27 Copynumber: 8.9 Consensus size: 27
31754144 TTTTGTTTAC
* *
31754154 AAAATTACCAAAATA-CCCTCGATTAGC
1 AAAATTACCAAAATACCCCT-GATTTGT
* *
31754181 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
** *
31754208 AAAATTACCAAAATACCTTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
31754235 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * * *
31754262 GAAATTATCAAAATACCCTTGACTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
31754289 AAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * *
31754316 AAAGTTACCAAAATACCCCTAATTTGG
1 AAAATTACCAAAATACCCCTGATTTGT
* *
31754343 AAAATTACCAAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
31754370 AAATTTACAAAAATATCCCTGATTT
1 AAAATTACCAAAATACCCCTGATTT
31754395 ACAAAATAAC
Statistics
Matches: 181, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.02
27 171 0.94
28 7 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:31754454 original size:28 final size:27
Alignment explanation
Indices: 31754425--31754477 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
31754415 ATGACTTTCA
31754425 AAAATTATAGAAATACCATTGGTTTGC
1 AAAATTATAGAAATACCATTGGTTTGC
* *
31754452 AAAATTATTGAAATACCCTTGGTTTG
1 AAAATTATAGAAATACCATTGGTTTG
31754478 TAGATTTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTGC
Found at i:31754609 original size:27 final size:27
Alignment explanation
Indices: 31754579--31754633 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
31754569 ATAAAGTTCC
*
31754579 TGTAGGGTAAAGTGACGATAATACCCT
1 TGTAGGGTAAAATGACGATAATACCCT
* * *
31754606 TGTATGGTAAAATGACGATTATGCCCT
1 TGTAGGGTAAAATGACGATAATACCCT
31754633 T
1 T
31754634 ATGTCTCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (27 bp):
TGTAGGGTAAAATGACGATAATACCCT
Found at i:31754801 original size:27 final size:26
Alignment explanation
Indices: 31754771--31754847 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
31754761 GTAGGGTGAG
*
31754771 TATGTCACATTCACTGTTACTGGTGGC
1 TATGCCACATT-ACTGTTACTGGTGGC
* *
31754798 TATGCCACAATTACTGATACAGGTGGC
1 TATGCCAC-ATTACTGTTACTGGTGGC
* *
31754825 TTTGCCACATTTACTGTTTCTGG
1 TATGCCACA-TTACTGTTACTGG
31754848 CATCTATGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.02
27 37 0.90
28 3 0.07
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (26 bp):
TATGCCACATTACTGTTACTGGTGGC
Found at i:31755048 original size:28 final size:27
Alignment explanation
Indices: 31755008--31755067 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
31754998 ACTGTATTGT
*
31755008 TACTGCATTGGGCTTAGGCCCACACTG
1 TACTGCATAGGGCTTAGGCCCACACTG
* *
31755035 CTACTGTATAGGGCTTAGGCCCAGACTG
1 -TACTGCATAGGGCTTAGGCCCACACTG
31755063 TACTG
1 TACTG
31755068 ATACTGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (27 bp):
TACTGCATAGGGCTTAGGCCCACACTG
Found at i:31755079 original size:33 final size:33
Alignment explanation
Indices: 31755031--31755105 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
31755021 TTAGGCCCAC
* *
31755031 ACTGCTACTGTATAGGGCTTAGGCCCAGACTGT
1 ACTGATACTGAATAGGGCTTAGGCCCAGACTGT
* *
31755064 ACTGATACTGAATAGGGCTTTGGCCTAGACTGT
1 ACTGATACTGAATAGGGCTTAGGCCCAGACTGT
31755097 ACTGATACT
1 ACTGATACT
31755106 ATATTATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (33 bp):
ACTGATACTGAATAGGGCTTAGGCCCAGACTGT
Found at i:31762581 original size:17 final size:18
Alignment explanation
Indices: 31762559--31762592 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31762549 CTTATTTTTA
31762559 AATAAAATAATA-GCATT
1 AATAAAATAATATGCATT
*
31762576 AATAAATTAATATGCAT
1 AATAAAATAATATGCAT
31762593 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (18 bp):
AATAAAATAATATGCATT
Found at i:31781579 original size:49 final size:49
Alignment explanation
Indices: 31781285--31781604 Score: 200
Period size: 49 Copynumber: 6.7 Consensus size: 49
31781275 AGGGTACGAC
* * * *
31781285 GTCGACGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAC--ATCTAA
1 GTCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCACTTATCTAA
* * * * *
31781333 GTCGATGCCATGTTCCAAACAGGTCTTACACTAACT-T-ACATA-CATTGA
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATC--TAA
* * * * * *
31781381 GGCTAATGCCATG-CCTTAGACAGGTCTTATACTGGCTCTCACTTATCTAT
1 GTC-GATGCCATGTCC-CAGACAGGTCTTACACTAGCTCTCACTTATCTAA
* * * * *
31781431 GTCGATTCCATATCCCAGACAGGTCTTACACTA--ACACAC--CTC-AA
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTAA
* * * * *
31781475 G-CTGATGCCATGTCCTAGATAGGTCTTCCACTAGCT-T-ACATATCTTGA
1 GTC-GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATC-TAA
* * **
31781523 GACCGATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCACTTATCTTT
1 G-TCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTAA
*
31781573 GTCGATGCCATGTCCCAGACAGGTCCTACACT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACT
31781605 GACACATACA
Statistics
Matches: 208, Mismatches: 43, Indels: 41
0.71 0.15 0.14
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 4 0.02
46 4 0.02
47 18 0.09
48 27 0.13
49 104 0.50
50 10 0.05
51 10 0.05
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTAA
Found at i:31781592 original size:142 final size:142
Alignment explanation
Indices: 31781336--31781610 Score: 358
Period size: 142 Copynumber: 1.9 Consensus size: 142
31781326 CATCTAAGTC
* * *
31781336 GATGCCATGTTCCAAACAGGTCTTACACTAACTTACATACATTGAGGCTAATGCCATGCCTTAGA
1 GATGCCATGTTCCAAACAGGTCTTACACTAACTTACATACATTGAGACCAATGCCATGCCTCAGA
* * * *
31781401 CAGGTCTTATACTGGCTCTCACTTATCTATGTCGATTCCATATCCCAGACAGGTCTTACACTAAC
66 CAGGTCTTACACTAGCTCTCACTTATCTATGTCGATGCCATATCCCAGACAGGTCCTACACTAAC
31781466 ACACCTCAAGCT
131 ACACCTCAAGCT
* * * * *
31781478 GATGCCATG-TCCTAGATAGGTCTTCCACTAGCTTACATATC-TTGAGACCGATGCCATGTCC-C
1 GATGCCATGTTCC-AAACAGGTCTTACACTAACTTACATA-CATTGAGACCAATGCCATG-CCTC
* * *
31781540 AGATAGGTCTTACACTAGCTCTCACTTATCTTTGTCGATGCCATGTCCCAGACAGGTCCTACACT
63 AGACAGGTCTTACACTAGCTCTCACTTATCTATGTCGATGCCATATCCCAGACAGGTCCTACACT
*
31781605 GACACA
128 AACACA
31781611 TACATCACCC
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
141 3 0.03
142 108 0.95
143 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (142 bp):
GATGCCATGTTCCAAACAGGTCTTACACTAACTTACATACATTGAGACCAATGCCATGCCTCAGA
CAGGTCTTACACTAGCTCTCACTTATCTATGTCGATGCCATATCCCAGACAGGTCCTACACTAAC
ACACCTCAAGCT
Found at i:31785026 original size:19 final size:19
Alignment explanation
Indices: 31785002--31785041 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
31784992 GGAATCACGC
31785002 ATGCGACCTAGCTACATTT
1 ATGCGACCTAGCTACATTT
31785021 ATGCGACCTAGCTACATTT
1 ATGCGACCTAGCTACATTT
31785040 AT
1 AT
31785042 CTCTCACGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (19 bp):
ATGCGACCTAGCTACATTT
Found at i:31786716 original size:27 final size:27
Alignment explanation
Indices: 31786686--31786742 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
31786676 TTTATATGAA
*
31786686 AATATACTAATTAAGATTTAATTGCAT
1 AATATACTAATTAAGATTTAATTCCAT
*
31786713 AATATACTTATTAAGATTTAATTCCAT
1 AATATACTAATTAAGATTTAATTCCAT
31786740 AAT
1 AAT
31786743 TTATTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (27 bp):
AATATACTAATTAAGATTTAATTCCAT
Found at i:31786760 original size:24 final size:27
Alignment explanation
Indices: 31786686--31786760 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
31786676 TTTATATGAA
* * *
31786686 AATATACTAATTAAGATTTAATTGCAT
1 AATATACTTATGAAGATTTAATTCCAT
*
31786713 AATATACTTATTAAGATTTAATTCCAT
1 AATATACTTATGAAGATTTAATTCCAT
*
31786740 AATTTA-TT-TGAA-ATTTAATTC
1 AATATACTTATGAAGATTTAATTC
31786761 AACTTACATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 9 0.20
25 3 0.07
26 2 0.05
27 30 0.68
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (27 bp):
AATATACTTATGAAGATTTAATTCCAT
Found at i:31787125 original size:49 final size:49
Alignment explanation
Indices: 31787065--31787238 Score: 249
Period size: 49 Copynumber: 3.5 Consensus size: 49
31787055 CTAGTACGCA
*
31787065 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
* * * ** * *
31787114 TAGTAGTCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATAATCCGGTACACG
31787164 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
* *
31787213 TAGTATCCTGCACTTAGTACTGCACA
1 TAGTAGCCTGCACTTAGTACTACACA
31787239 CATGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
49 66 0.61
50 42 0.39
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
Found at i:31787239 original size:99 final size:99
Alignment explanation
Indices: 31787065--31787246 Score: 321
Period size: 99 Copynumber: 1.8 Consensus size: 99
31787055 CTAGTACGCA
*
31787065 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGTCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGTCTGCACTTA
*
31787130 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACATGACCTAACCATCTGATACACG
31787164 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTA-TCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGT-CTGCACTT
*
31787228 AGTACTGCACACATGACCT
65 AGTACTACACACATGACCT
31787247 CACAATATAT
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 1 0.01
99 78 0.99
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGTCTGCACTTA
GTACTACACACATGACCTAACCATCTGATACACG
Found at i:31794689 original size:47 final size:47
Alignment explanation
Indices: 31794638--31795001 Score: 622
Period size: 47 Copynumber: 7.7 Consensus size: 47
31794628 TTAGGATTCT
* * * *
31794638 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
31794685 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31794732 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31794779 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31794826 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
31794873 ATGTGATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
31794920 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
31794967 ACGTGATGGATGTGAAAGTGTATATATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
31795002 TCCCGAAGGG
Statistics
Matches: 303, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 302 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:31795058 original size:70 final size:70
Alignment explanation
Indices: 31794972--31795104 Score: 257
Period size: 70 Copynumber: 1.9 Consensus size: 70
31794962 GGCCAACGTG
*
31794972 ATGGATGTGAAAGTGTATATATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGG
1 ATGGATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGG
31795037 TTTTA
66 TTTTA
31795042 ATGGATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCG
1 ATGGATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCG
31795105 AGTTAAAACC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (70 bp):
ATGGATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGG
TTTTA
Found at i:31795246 original size:37 final size:37
Alignment explanation
Indices: 31795190--31795268 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
31795180 CCGAGCTCTA
* * * *
31795190 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGTGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31795227 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31795264 AAGAC
1 AAGAC
31795269 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31799996 original size:5 final size:5
Alignment explanation
Indices: 31799967--31800055 Score: 65
Period size: 5 Copynumber: 16.8 Consensus size: 5
31799957 ACTCCTATTT
* *
31799967 TTTTA -TTTA TTCTTA TTTCTA TTTTA TTTTA TTTTTCT TTTTC TTTTGA
1 TTTTA TTTTA TT-TTA TTT-TA TTTTA TTTTA -TTTT-A TTTTA TTTT-A
* *
31800016 TTTTTA TTTTCA TTTCA TTTT- TATTA TTTTA TTTTA TTTT
1 -TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
31800056 GAAAGACATA
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
4 7 0.10
5 34 0.50
6 23 0.34
7 4 0.06
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:31800020 original size:7 final size:6
Alignment explanation
Indices: 31799962--31800055 Score: 63
Period size: 6 Copynumber: 16.0 Consensus size: 6
31799952 CATTGACTCC
* * *
31799962 TATTTT T-TTATT TATTCT TATTTC TA-TTT TA-TTT TATTTT TCTTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * * *
31800008 TCTTTT GATTTT TATTTT CA-TTT CATTTT TATTATT T-TATTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATT-TT TAT-TTT TATTTT
31800056 GAAAGACATA
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
5 16 0.23
6 48 0.68
7 7 0.10
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:31800030 original size:12 final size:11
Alignment explanation
Indices: 31799966--31800055 Score: 66
Period size: 11 Copynumber: 8.4 Consensus size: 11
31799956 GACTCCTATT
31799966 TTTTTA-TTTA
1 TTTTTATTTTA
*
31799976 TTCTTATTTCTA
1 TTTTTATTT-TA
31799988 -TTTTATTTTA
1 TTTTTATTTTA
*
31799998 TTTTTCTTTT-
1 TTTTTATTTTA
31800008 TCTTTTGATTTTTA
1 T-TTTT-A-TTTTA
* *
31800022 TTTTCATTTCA
1 TTTTTATTTTA
31800033 TTTTTA--TTA
1 TTTTTATTTTA
31800042 -TTTTATTTTA
1 TTTTTATTTTA
31800052 TTTT
1 TTTT
31800056 GAAAGACATA
Statistics
Matches: 62, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
8 5 0.08
9 2 0.03
10 11 0.18
11 33 0.53
12 3 0.05
13 7 0.11
14 1 0.02
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:31800044 original size:20 final size:19
Alignment explanation
Indices: 31799986--31800055 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 19
31799976 TTCTTATTTC
* *
31799986 TATTTTATTTTATTTTTCT
1 TATTTTATTTCATTTTTAT
*
31800005 T-TTTCT-TTTGATTTTTA-
1 TATTT-TATTTCATTTTTAT
*
31800022 T-TTTCATTTCATTTTTAT
1 TATTTTATTTCATTTTTAT
*
31800040 TATTTTATTTTATTTT
1 TATTTTATTTCATTTT
31800056 GAAAGACATA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
17 14 0.34
18 13 0.32
19 14 0.34
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (19 bp):
TATTTTATTTCATTTTTAT
Found at i:31808307 original size:49 final size:47
Alignment explanation
Indices: 31808246--31808422 Score: 178
Period size: 49 Copynumber: 3.6 Consensus size: 47
31808236 TATAAGTCGG
31808246 TGCCATGTCCCAGACAGGTCTTACACTGACTTACATACATCAAGGCCGA
1 TGCCATGTCCCAGACAGGTCTTACACTGACTT-CATACATC-AGGCCGA
* * * * * * * *
31808295 CGCCATGTCCCAGATAGCTTTTACACTGGCTCTCACT-TATCTGTGTCGA
1 TGCCATGTCCCAGACAGGTCTTACACTGACT-TCA-TACATCAG-GCCGA
* *
31808344 TGCCATGTCCCAGACAGGTCTTACACT-AGCTTGCATATCTTGAGGCCGA
1 TGCCATGTCCCAGACAGGTCTTACACTGA-CTT-CATA-CATCAGGCCGA
31808393 TGCCATGTCCCAGACAGGTCTTACACTGAC
1 TGCCATGTCCCAGACAGGTCTTACACTGAC
31808423 ACGCATGTCA
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
48 3 0.03
49 94 0.92
50 5 0.05
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
TGCCATGTCCCAGACAGGTCTTACACTGACTTCATACATCAGGCCGA
Found at i:31808359 original size:98 final size:96
Alignment explanation
Indices: 31808193--31808420 Score: 262
Period size: 98 Copynumber: 2.3 Consensus size: 96
31808183 AGGTTACGAT
* * * * *
31808193 GCCGACACCATGTTCCAAACATGGTCTTACACTGGCTCTCACATATAAGTCGGTGCCATGTCCCA
1 GCCGACGCCATGTCCCAGACA-GCTCTTACACTGGCTCTCACATATAAGTCGATGCCATGTCCCA
31808258 GACAGGTCTTACACT-GACTTACATA-CATCAAG
65 GACAGGTCTTACACTAG-CTTACATATC-TCAAG
* * * **
31808290 GCCGACGCCATGTCCCAGATAGCTTTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCC
1 GCCGACGCCATGTCCCAGACAGCTCTTACACTGGCTCTCAC--ATATAAGTCGATGCCATGTCCC
* **
31808355 AGACAGGTCTTACACTAGCTTGCATATCTTGAG
64 AGACAGGTCTTACACTAGCTTACATATCTCAAG
* *
31808388 GCCGATGCCATGTCCCAGACAGGTCTTACACTG
1 GCCGACGCCATGTCCCAGACAGCTCTTACACTG
31808421 ACACGCATGT
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
96 18 0.16
97 17 0.15
98 73 0.66
99 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (96 bp):
GCCGACGCCATGTCCCAGACAGCTCTTACACTGGCTCTCACATATAAGTCGATGCCATGTCCCAG
ACAGGTCTTACACTAGCTTACATATCTCAAG
Found at i:31818705 original size:43 final size:44
Alignment explanation
Indices: 31818571--31818705 Score: 159
Period size: 47 Copynumber: 3.0 Consensus size: 44
31818561 TATTATGTGA
*
31818571 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAAAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACGAATATG---T
* * *
31818618 GCTAGTGTAAGACATGTTTGGGACATGCATCGACTACG-AGATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-ACGAATATGT
*
31818662 GCTA-TGTAAGACATGTCTGTGACATGCATCGGCACGAATATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACGAATATGT
31818705 G
1 G
31818706 AATGCCAGTG
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
42 3 0.04
43 32 0.42
44 5 0.06
46 1 0.01
47 36 0.47
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACGAATATGT
Found at i:31822900 original size:40 final size:40
Alignment explanation
Indices: 31822856--31823038 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
31822846 TACTTACTCG
* *
31822856 AATGCCTTCGGGACATAGCCCGGATATAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
31822896 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
31822936 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * * *
31822976 AATGCCTTCGAGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
31823016 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
31823039 TTATCATCTA
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:31845739 original size:29 final size:28
Alignment explanation
Indices: 31845683--31845827 Score: 148
Period size: 29 Copynumber: 5.1 Consensus size: 28
31845673 GTGAGCATGA
*
31845683 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
* *
31845711 ATATAAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
31845740 ATATGAATGTGAATTTGGCCTAGTGGGCC
1 ATATGAATGTG-ATTGGGCCTAATGGGCC
* * * *
31845769 ATAAGAATATGAACTGGGCC-ATATAGGCC
1 ATATGAATGTG-ATTGGGCCTA-ATGGGCC
* *
31845798 ATATGAATGAGATTGGGCCTAGTGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
31845826 AT
1 AT
31845828 TTGCATTTAT
Statistics
Matches: 94, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
28 26 0.28
29 67 0.71
30 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:31845787 original size:58 final size:57
Alignment explanation
Indices: 31845683--31845827 Score: 186
Period size: 58 Copynumber: 2.5 Consensus size: 57
31845673 GTGAGCATGA
** * **
31845683 ATATGAATGTGATTGGGCCTAACGGGCCATATAAATGTGATTTGGGCC-TAATAGGCC
1 ATATGAATGTGATTGGGCCTAGTGGGCCATATAAATATGAACTGGGCCAT-ATAGGCC
*
31845740 ATATGAATGTGAATTTGGCCTAGTGGGCCATA-AGAATATGAACTGGGCCATATAGGCC
1 ATATGAATGTG-ATTGGGCCTAGTGGGCCATATA-AATATGAACTGGGCCATATAGGCC
*
31845798 ATATGAATGAGATTGGGCCTAGTGGGCCAT
1 ATATGAATGTGATTGGGCCTAGTGGGCCAT
31845828 TTGCATTTAT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
57 30 0.39
58 46 0.60
59 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (57 bp):
ATATGAATGTGATTGGGCCTAGTGGGCCATATAAATATGAACTGGGCCATATAGGCC
Found at i:31847414 original size:55 final size:56
Alignment explanation
Indices: 31847349--31847463 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
31847339 AGCATGGCTG
* *
31847349 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
31847405 CCAGA-ACAGATATATGTGGCAGGGCCACTAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
31847460 CCAG
1 CCAG
31847464 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:31847426 original size:27 final size:27
Alignment explanation
Indices: 31847374--31847463 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
31847364 GTGACAGAGT
31847374 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
31847403 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
31847430 CACTAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
31847458 CACCAG
1 CACCAG
31847464 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:31847636 original size:56 final size:56
Alignment explanation
Indices: 31847569--31847689 Score: 233
Period size: 56 Copynumber: 2.2 Consensus size: 56
31847559 AAATTAACCC
31847569 TAGGGGTATAAAGGTCATTTAGCATACATAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTCATTTAGCATACATAGGGGTATAATGGTAATTTTGCATACA
*
31847625 TAGGGGTATAAAGGTCATTTAGCATACGTAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTCATTTAGCATACATAGGGGTATAATGGTAATTTTGCATACA
31847681 TAGGGGTAT
1 TAGGGGTAT
31847690 TCTGGTAAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (56 bp):
TAGGGGTATAAAGGTCATTTAGCATACATAGGGGTATAATGGTAATTTTGCATACA
Found at i:31847697 original size:28 final size:28
Alignment explanation
Indices: 31847569--31847689 Score: 179
Period size: 28 Copynumber: 4.3 Consensus size: 28
31847559 AAATTAACCC
* *
31847569 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAATGGTAATTTAGCATACA
*
31847597 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTAGCATACA
* * *
31847625 TAGGGGTATAAAGGTCATTTAGCATACG
1 TAGGGGTATAATGGTAATTTAGCATACA
*
31847653 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTAGCATACA
31847681 TAGGGGTAT
1 TAGGGGTAT
31847690 TCTGGTAAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 82 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTAGCATACA
Found at i:31847965 original size:8 final size:8
Alignment explanation
Indices: 31847938--31847968 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
31847928 CCAAAATACT
31847938 GGCTTTTC
1 GGCTTTTC
*
31847946 GGCATTTC
1 GGCTTTTC
31847954 GGCTTTTC
1 GGCTTTTC
31847962 GGCTTTT
1 GGCTTTT
31847969 GCCGATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:31855514 original size:29 final size:27
Alignment explanation
Indices: 31855481--31855561 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 27
31855471 GTGACAGAGT
*
31855481 CACCAGATGCAGATATTTTGTGGCAGTGC
1 CACCAGA--CAGATATTTTGTGGCAGGGC
*
31855510 CACCAGAACAGATATATGTGTGGCAGGGC
1 CACCAG-ACAGATAT-TTTGTGGCAGGGC
* *
31855539 CACCAGAAAGATAATTTGTGGCA
1 CACCAGACAGATATTTTGTGGCA
31855562 TAGCCATCAG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 8 0.18
28 13 0.29
29 23 0.51
30 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (27 bp):
CACCAGACAGATATTTTGTGGCAGGGC
Found at i:31855748 original size:28 final size:28
Alignment explanation
Indices: 31855677--31855740 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
31855667 AAATTAACCC
* *
31855677 TAGGGGTATAAAGGTCA-TTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
31855704 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
31855732 TAGGGGTAT
1 TAGGGGTAT
31855741 TCTGGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:31863166 original size:29 final size:28
Alignment explanation
Indices: 31863111--31863263 Score: 155
Period size: 29 Copynumber: 5.4 Consensus size: 28
31863101 GTGAGCATGA
*
31863111 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
31863139 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
31863168 ATATGAATGTGAATTTGGCCTAGTGGGCC
1 ATATGAATGTG-ATTGGGCCTAATGGGCC
* * *
31863197 ATAAGAATATGAACTGGGCC-ATATGGGCC
1 ATATGAATGTG-ATTGGGCCTA-ATGGGCC
** * *
31863226 ATATGAATAAGATTGGGCCCAGTGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
31863254 ATATGCATGT
1 ATATGAATGT
31863264 ATCTAGGGGT
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
28 32 0.31
29 71 0.68
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:31863215 original size:58 final size:57
Alignment explanation
Indices: 31863111--31863257 Score: 172
Period size: 58 Copynumber: 2.6 Consensus size: 57
31863101 GTGAGCATGA
** * **
31863111 ATATGAATGTGATTGGGCCTAACGGGCCATATAAATGTGATTTGGGCC-TAATGGGCC
1 ATATGAATGTGATTGGGCCTAGTGGGCCATATAAATATGAACTGGGCCAT-ATGGGCC
*
31863168 ATATGAATGTGAATTTGGCCTAGTGGGCCATA-AGAATATGAACTGGGCCATATGGGCC
1 ATATGAATGTG-ATTGGGCCTAGTGGGCCATATA-AATATGAACTGGGCCATATGGGCC
** *
31863226 ATATGAATAAGATTGGGCCCAGTGGGCCATAT
1 ATATGAATGTGATTGGGCCTAGTGGGCCATAT
31863258 GCATGTATCT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
57 30 0.39
58 45 0.59
59 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (57 bp):
ATATGAATGTGATTGGGCCTAGTGGGCCATATAAATATGAACTGGGCCATATGGGCC
Found at i:31868372 original size:20 final size:20
Alignment explanation
Indices: 31868347--31868385 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
31868337 ATAATTCAAG
31868347 TTTTTACATTGCAACAAATA
1 TTTTTACATTGCAACAAATA
31868367 TTTTTACATTGCAACAAAT
1 TTTTTACATTGCAACAAAT
31868386 GAATACACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTTTACATTGCAACAAATA
Found at i:31869959 original size:43 final size:43
Alignment explanation
Indices: 31869754--31870196 Score: 341
Period size: 43 Copynumber: 10.3 Consensus size: 43
31869744 TTTTTTAGAA
* * *
31869754 AAAAACGCCGCTA-AGGACCACGATCTTTAGCGGCATTTTTTAT
1 AAAAACGCCGCTATA-GACCAGGAACTTTAGCGGCGTTTTTTAT
* * * * * * *
31869797 AAAAGCGTCGCTAAAGACCAGGACCTTTAGCGGCG-CTCTTAA
1 AAAAACGCCGCTATAGACCAGGAACTTTAGCGGCGTTTTTTAT
* * *
31869839 AAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCGTTTTTTAT
1 AAAAACGCCGCTATAGACCAGGAACTTTAGCGGCGTTTTTTAT
* * * *
31869882 AAAAGCGCCGTTAAAGACCAGGACCTTTAGCGGCGTTTTTTAT
1 AAAAACGCCGCTATAGACCAGGAACTTTAGCGGCGTTTTTTAT
* *
31869925 AAAAGCGCCGCTATAGACCAGGAACTTTAGCGGCG-CTTTTAT
1 AAAAACGCCGCTATAGACCAGGAACTTTAGCGGCGTTTTTTAT
* * * * *
31869967 AAAAAACGCTGCTATAGACC-TGTACTTTTAGCCGCG-CTTTTAT
1 -AAAAACGCCGCTATAGACCAGGAAC-TTTAGCGGCGTTTTTTAT
* * * *
31870010 AAAAAATGCCGCTATAGACC-TGTACTTTTAGCGGCGCTTTTGTA-
1 -AAAAACGCCGCTATAGACCAGGAAC-TTTAGCGGCG-TTTTTTAT
* * * *
31870054 AAAAAAGCCTCTATAGACCAAGAACTTTAGCGGCG-CTTTTAT
1 AAAAACGCCGCTATAGACCAGGAACTTTAGCGGCGTTTTTTAT
* ** * * *
31870096 AAAAAATGCCGCTATAGA-CTTGTACTTTTAGCGGCGCTTTTGTAA
1 -AAAAACGCCGCTATAGACCAGGAAC-TTTAGCGGCG-TTTTTTAT
* * *
31870141 AAAAACGCCGCAATAGACC-TGTACTTTTAGCGGCGCTTTTTTA-
1 AAAAACGCCGCTATAGACCAGGAAC-TTTAGCGGCG-TTTTTTAT
31870184 AAAAACGCCGCTA
1 AAAAACGCCGCTA
31870197 GTGTGCCCAG
Statistics
Matches: 338, Mismatches: 49, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
41 4 0.01
42 49 0.14
43 234 0.69
44 42 0.12
45 9 0.03
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (43 bp):
AAAAACGCCGCTATAGACCAGGAACTTTAGCGGCGTTTTTTAT
Found at i:31869997 original size:86 final size:86
Alignment explanation
Indices: 31869754--31870196 Score: 391
Period size: 86 Copynumber: 5.2 Consensus size: 86
31869744 TTTTTTAGAA
* * * * * * *
31869754 AAAAACGCCGCTA-AGGACCACGATC-TTTAGCGGC-ATTTTTTATAAAAGCGTCGCTAAAGACC
1 AAAAACGCCGCTATA-GACCAGGAACTTTTAGCGGCGCTTTTGTA-AAAAACGCCGCTATAGACC
* * * *
31869816 AGGACCTTTAGCGGCGCTCTTAA
64 AGTACTTTTAGCGGCGCTTTTAT
* * * * * * *
31869839 AAAAACGCCGCCAAAGACCAGG-ACCTTTAGCGGCG-TTTTTTATAAAAGCGCCGTTAAAGACCA
1 AAAAACGCCGCTATAGACCAGGAACTTTTAGCGGCGCTTTTGTA-AAAAACGCCGCTATAGACCA
* * *
31869902 GGACCTTTAGCGGCGTTTTTTAT
65 GTACTTTTAGCGGCG-CTTTTAT
* * * *
31869925 AAAAGCGCCGCTATAGACCAGGAAC-TTTAGCGGCGCTTTTATAAAAAACGCTGCTATAGACCTG
1 AAAAACGCCGCTATAGACCAGGAACTTTTAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACCAG
*
31869989 TACTTTTAGCCGCGCTTTTAT
66 TACTTTTAGCGGCGCTTTTAT
* * * * *
31870010 AAAAAATGCCGCTATAGACC-TGTACTTTTAGCGGCGCTTTTGTAAAAAAAGCCTCTATAGACCA
1 -AAAAACGCCGCTATAGACCAGGAACTTTTAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACC-
*
31870074 AGAAC-TTTAGCGGCGCTTTTAT
64 AGTACTTTTAGCGGCGCTTTTAT
* ** * *
31870096 AAAAAATGCCGCTATAGA-CTTGTACTTTTAGCGGCGCTTTTGTAAAAAAACGCCGCAATAGACC
1 -AAAAACGCCGCTATAGACCAGGAACTTTTAGCGGCGCTTTTGT-AAAAAACGCCGCTATAGACC
* *
31870160 TGTACTTTTAGCGGCGCTTTTTT
64 AGTACTTTTAGCGGCGCTTTTAT
31870183 AAAAAACGCCGCTA
1 -AAAAACGCCGCTA
31870197 GTGTGCCCAG
Statistics
Matches: 307, Mismatches: 39, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
84 1 0.00
85 78 0.25
86 171 0.56
87 57 0.19
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (86 bp):
AAAAACGCCGCTATAGACCAGGAACTTTTAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACCAG
TACTTTTAGCGGCGCTTTTAT
Found at i:31870070 original size:129 final size:129
Alignment explanation
Indices: 31869779--31870196 Score: 486
Period size: 129 Copynumber: 3.2 Consensus size: 129
31869769 GACCACGATC
* * * * *
31869779 TTTAGCGGC-ATTTTTT-ATAAAAGCGTCGCTAAAGACCAGGACCTTTAGCGGCGCTCTTA-AAA
1 TTTAGCGGCGCTTTTTTAAAAAAAGC--CGCTATAGACCAGGAACTTTAGCGGCGCTTTTATAAA
* * * * * * * * * * *
31869841 AAACGCCGCCAAAGACCAGGACCTTTAGCGGCG-TTTTTTATAAAAGCGCCGTTAAAGACCAGGA
64 AAACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTATA-AAAAACGCCGCTATAGACCTGTA
*
31869905 CC
128 CT
**
31869907 TTTAGCGGCG-TTTTTTATAAAAGCGCCGCTATAGACCAGGAACTTTAGCGGCGCTTTTATAAAA
1 TTTAGCGGCGCTTTTTTA-AAAAAAGCCGCTATAGACCAGGAACTTTAGCGGCGCTTTTATAAAA
* * *
31869971 AACGCTGCTATAGACCTGTACTTTTAGCCGCGCTTTTATAAAAAATGCCGCTATAGACCTGTACT
65 AACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTGTACT
* * *
31870036 TTTAGCGGCGCTTTTGTAAAAAAAGCCTCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAA
1 TTTAGCGGCGCTTTTTTAAAAAAAGCCGCTATAGACCAGGAACTTTAGCGGCGCTTTTATAAAAA
* * * *
31870101 ATGCCGCTATAGACTTGTACTTTTAGCGGCGCTTTTGTAAAAAAACGCCGCAATAGACCTGTACT
66 ACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTAT-AAAAAACGCCGCTATAGACCTGTACT
*
31870166 TTTAGCGGCGCTTTTTTAAAAAACGCCGCTA
1 TTTAGCGGCGCTTTTTTAAAAAAAGCCGCTA
31870197 GTGTGCCCAG
Statistics
Matches: 247, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
128 45 0.18
129 133 0.54
130 69 0.28
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (129 bp):
TTTAGCGGCGCTTTTTTAAAAAAAGCCGCTATAGACCAGGAACTTTAGCGGCGCTTTTATAAAAA
ACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTGTACT
Found at i:31870522 original size:21 final size:21
Alignment explanation
Indices: 31870498--31870545 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
31870488 TCCTGTTCTG
31870498 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
31870519 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
31870540 CTCCGC
1 CTCCGC
31870546 TCTAAGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.19, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTGCTGC
Found at i:31871133 original size:18 final size:18
Alignment explanation
Indices: 31871101--31871138 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
31871091 TACAATATAG
31871101 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
31871120 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
31871137 TA
1 TA
31871139 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:31878573 original size:133 final size:133
Alignment explanation
Indices: 31878335--31878854 Score: 1013
Period size: 133 Copynumber: 3.9 Consensus size: 133
31878325 GAATTCAACA
*
31878335 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATTTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
31878400 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
31878465 ATT
131 ATT
*
31878468 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
31878533 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
31878598 ATT
131 ATT
*
31878601 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATTTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
31878666 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
31878731 ATT
131 ATT
31878734 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
31878799 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATAT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATAT
31878855 TTAAATATTT
Statistics
Matches: 382, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 382 1.00
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (133 bp):
ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
ATT
Found at i:31878882 original size:8 final size:9
Alignment explanation
Indices: 31878848--31878887 Score: 66
Period size: 8 Copynumber: 4.7 Consensus size: 9
31878838 CTAAATAACC
31878848 AAAATATTT
1 AAAATATTT
31878857 -AAATATTT
1 AAAATATTT
31878865 AAAATATTT
1 AAAATATTT
31878874 AAAAT-TTT
1 AAAATATTT
31878882 AAAATA
1 AAAATA
31878888 AGGTTGGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 16 0.55
9 13 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:31878882 original size:17 final size:17
Alignment explanation
Indices: 31878848--31878887 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
31878838 CTAAATAACC
31878848 AAAATATTTAAATATTT
1 AAAATATTTAAATATTT
31878865 AAAATATTTAAA-ATTTT
1 AAAATATTTAAATA-TTT
31878882 AAAATA
1 AAAATA
31878888 AGGTTGGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATATTTAAATATTT
Found at i:31881472 original size:6 final size:6
Alignment explanation
Indices: 31881461--31881486 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
31881451 TTGATTTATT
31881461 AAAACC AAAACC AAAACC AAAACC AA
1 AAAACC AAAACC AAAACC AAAACC AA
31881487 TAATATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:31884066 original size:41 final size:40
Alignment explanation
Indices: 31884008--31884104 Score: 176
Period size: 41 Copynumber: 2.4 Consensus size: 40
31883998 GCTATATGAC
31884008 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
31884048 TCTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGG
1 T-TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
31884089 TTTTAGCGGCGTTTTA
1 TTTTAGCGGCGTTTTA
31884105 GTAAAAAACA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
40 16 0.29
41 39 0.71
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:31884175 original size:41 final size:40
Alignment explanation
Indices: 31884008--31884175 Score: 167
Period size: 41 Copynumber: 4.1 Consensus size: 40
31883998 GCTATATGAC
*
31884008 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCT-GT
* * * *
31884049 CTTTAGCGGCGTTTTACCAAAAGCGCTGCTAATGCTCTGG
1 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGT
** * ** *
31884089 TTTTAGCGGCGTTTTAGTAAAAAACACCGCTGTTACTCTGT
1 TTTTAGCGGCGTTTTA-CCAAAAGCACCGCTAATGCTCTGT
** *
31884130 TTTTAGCGGCGTTTTTATTAAAA-CACCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTACCAAAAGCACCGCTAATGCTCTGT
31884170 ATTTTA
1 -TTTTA
31884176 AAATTTTTTT
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 31 0.29
41 72 0.67
42 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGT
Found at i:31884214 original size:12 final size:12
Alignment explanation
Indices: 31884199--31884224 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31884189 GTTTTTTTAT
31884199 AAAACGCCGCTA
1 AAAACGCCGCTA
31884211 AAAACGCCGCTA
1 AAAACGCCGCTA
31884223 AA
1 AA
31884225 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:31888799 original size:40 final size:40
Alignment explanation
Indices: 31888744--31889011 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
31888734 GAGCATTGGA
31888744 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31888784 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31888824 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
31888864 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
31888904 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
31888944 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
31888984 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
31889012 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:31897251 original size:40 final size:40
Alignment explanation
Indices: 31897170--31897432 Score: 428
Period size: 40 Copynumber: 6.7 Consensus size: 40
31897160 GAGCATTGGA
31897170 ATATAT-C-GGCTAAGACCCGAAGGCAA-TATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31897207 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31897247 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
31897287 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
31897327 ATATATCC-GGCTATGACCCGAAGGCAATTATGC-AGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
31897365 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
31897405 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
31897433 ATGTGTTTGC
Statistics
Matches: 211, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
37 6 0.03
38 12 0.06
39 66 0.31
40 127 0.60
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:31897408 original size:118 final size:119
Alignment explanation
Indices: 31897170--31897432 Score: 426
Period size: 118 Copynumber: 2.2 Consensus size: 119
31897160 GAGCATTGGA
*
31897170 ATATAT-C-GGCTAAGACCCGAAGGCAATATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGCAATATGCGAGTTAATATATCCGGGCTAAGACCCGAAGGC
* * *
31897233 AATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
66 AATTATGCGAGATGATATATCCGGGCTAAAACCCGAAGGCAATTATGCAAGTTG
*
31897287 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATATCC-GGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAA-TATGCGAGTTAATATATCCGGGCTAAGACCCGAAGG
31897351 CAATTATGC-AGATGATATATCCGGGCTAAAACCCGAAGGCAATTATGCAAGTTG
65 CAATTATGCGAGATGATATATCCGGGCTAAAACCCGAAGGCAATTATGCAAGTTG
* *
31897405 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
31897433 ATGTGTTTGC
Statistics
Matches: 136, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
117 6 0.04
118 69 0.51
119 43 0.32
120 18 0.13
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (119 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATATGCGAGTTAATATATCCGGGCTAAGACCCGAAGGC
AATTATGCGAGATGATATATCCGGGCTAAAACCCGAAGGCAATTATGCAAGTTG
Found at i:31898695 original size:1 final size:1
Alignment explanation
Indices: 31898691--31898760 Score: 140
Period size: 1 Copynumber: 70.0 Consensus size: 1
31898681 AAAATTAATT
31898691 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
31898756 AAAAA
1 AAAAA
31898761 GTCTGTATCT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:31898844 original size:1 final size:1
Alignment explanation
Indices: 31898772--31898837 Score: 132
Period size: 1 Copynumber: 66.0 Consensus size: 1
31898762 TCTGTATCTA
31898772 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31898837 T
1 T
31898838 AATTTTTATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:31919097 original size:29 final size:29
Alignment explanation
Indices: 31919060--31919154 Score: 118
Period size: 29 Copynumber: 3.3 Consensus size: 29
31919050 CATGAATGTG
*
31919060 AATGTGATTTGGGCCTCATGAGCCATATA
1 AATGTGATTTGGGCCTAATGAGCCATATA
* * *
31919089 AATATGATTTGGGCCTGATGGGCCATATA
1 AATGTGATTTGGGCCTAATGAGCCATATA
* ** *
31919118 CATGTGAAGTGGGCCTAATGAACCATATA
1 AATGTGATTTGGGCCTAATGAGCCATATA
31919147 AATGTGAT
1 AATGTGAT
31919155 GGCCAGTGGG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGAGCCATATA
Found at i:31919182 original size:58 final size:57
Alignment explanation
Indices: 31919069--31919176 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
31919059 GAATGTGATT
* * *
31919069 TGGGCCTCATGAGCCATATAAATATGATTTGGGCCTGATGGGCCATATACATGTGAAG
1 TGGGCCTAATGAACCATATAAATATGA-TTGGGCCAGATGGGCCATATACATGTGAAG
*
31919127 TGGGCCTAATGAACCATATAAATGTGA-T-GGCCAG-TGGGCCATATACATGT
1 TGGGCCTAATGAACCATATAAATATGATTGGGCCAGATGGGCCATATACATGT
31919177 ATGTGAGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
54 16 0.35
55 5 0.11
56 1 0.02
58 24 0.52
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (57 bp):
TGGGCCTAATGAACCATATAAATATGATTGGGCCAGATGGGCCATATACATGTGAAG
Found at i:31922577 original size:40 final size:40
Alignment explanation
Indices: 31922515--31922770 Score: 349
Period size: 40 Copynumber: 6.5 Consensus size: 40
31922505 AAGCCAAGTA
* * * *
31922515 CCTTCGGGAGTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
31922554 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31922594 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
31922633 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
31922673 CCTTCGGGACTTAACCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
31922713 CCTTCAGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
31922753 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
31922771 TTATCATCCG
Statistics
Matches: 197, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 50 0.25
40 147 0.75
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:31922651 original size:79 final size:79
Alignment explanation
Indices: 31922515--31922770 Score: 345
Period size: 79 Copynumber: 3.2 Consensus size: 79
31922505 AAGCCAAGTA
* * * * *
31922515 CCTTCGGGAGTTAACCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAACCCGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
31922579 TAACTCGCACCAATG
65 TAACTCGCACAAATG
* *
31922594 CCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGT
1 CCTTCGGGACTTAACCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
31922659 AACTCGCACAAATG
66 AACTCGCACAAATG
* *
31922673 CCTTCGGGACTTAACCCGGATATAATAACTCGCACAAATGCCTTCAGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAACCC-GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
* * *
31922737 GTCACTAGCGCAAATG
64 GTAACTCGCACAAATG
*
31922753 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAACCCG
31922771 TTATCATCCG
Statistics
Matches: 158, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
78 1 0.01
79 87 0.55
80 70 0.44
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACTTAACCCGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:31930574 original size:40 final size:40
Alignment explanation
Indices: 31930530--31930712 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
31930520 TACTTACTCG
* *
31930530 AATGCCTTCGGGACATAGCCCGGATATAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
31930570 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
31930610 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
31930650 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
31930690 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
31930713 TTATCATCTA
Statistics
Matches: 137, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
39 1 0.01
40 136 0.99
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:31937177 original size:3 final size:3
Alignment explanation
Indices: 31937171--31937196 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31937161 TTTTTCTCTT
31937171 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
31937197 TACTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:31938212 original size:15 final size:15
Alignment explanation
Indices: 31938189--31938222 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
31938179 ATACCCATGG
* *
31938189 CCATTAAACCTTAAA
1 CCATAAAACCCTAAA
31938204 CCATAAAACCCTAAA
1 CCATAAAACCCTAAA
31938219 CCAT
1 CCAT
31938223 TGACCTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATAAAACCCTAAA
Found at i:31938561 original size:41 final size:41
Alignment explanation
Indices: 31938474--31938668 Score: 232
Period size: 41 Copynumber: 4.8 Consensus size: 41
31938464 GTTATATGAC
* *
31938474 TTTTAGCGGCGTTTTGACCATAAACGCCGCTATTGCTTTGGT
1 TTTTAGCGGCGTTTT-ACCAAAAACGCCGCTATTGCTCTGGT
* *
31938516 TTTTAGCGGCGTTTTACCAAAAACGTCGTTATTGCTCTAGG-
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCT-GGT
*
31938557 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCCCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
**** * * *
31938598 TTTTAGCGGCGTTTTTGGTAAAACGCTGCTATTTCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
**
31938638 TTTTAGCGGCGTTTTAGTAAAAACGCCGCTA
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTA
31938669 ATGTATAATT
Statistics
Matches: 132, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 30 0.23
41 85 0.64
42 17 0.13
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
Found at i:31939315 original size:14 final size:15
Alignment explanation
Indices: 31939281--31939318 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
31939271 GTATTGTGAT
*
31939281 TTGGATTTTCTTGTC
1 TTGGATTTTCTTATC
*
31939296 TTGGATTTT-TTATG
1 TTGGATTTTCTTATC
31939310 TTGGATTTT
1 TTGGATTTT
31939319 ATATTCTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.11, C:0.05, G:0.21, T:0.63
Consensus pattern (15 bp):
TTGGATTTTCTTATC
Found at i:31941936 original size:46 final size:44
Alignment explanation
Indices: 31941868--31941998 Score: 169
Period size: 44 Copynumber: 3.0 Consensus size: 44
31941858 TGCTATTATG
*
31941868 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATTGA-GACGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATC-G-ACT-ACGA-GA
*
31941915 -GAGCCAGTGTAAGGCATGTCTGGGACATGCATCGACTACGAGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGA
* *
31941958 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGAC-ACGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGA
31941999 ATATGTGAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
43 7 0.09
44 37 0.48
45 1 0.01
46 32 0.42
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (44 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGA
Found at i:31942005 original size:44 final size:44
Alignment explanation
Indices: 31941871--31942032 Score: 159
Period size: 44 Copynumber: 3.5 Consensus size: 44
31941861 TATTATGTGA
* *
31941871 GCCAGTGTAAGACATGTCTGGGACATGCATC-AGCATTGAGACGA-GA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGA-CA-CGA-A-GATGT
*
31941917 GCCAGTGTAAGGCATGTCTGGGACATGCATCGACTACG-AGATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGAC-ACGAAGATGT
* *
31941961 GCTAGTGTAAGACATGTCTGGGACATGCATCGACACGAATATGTGAAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACACGAAGA--TG--T
*
31942009 GCCAGTGTAAGACCATATCTGGGA
1 GCCAGTGTAAGA-CATGTCTGGGA
31942033 TATGGCTTCG
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.05
44 36 0.36
46 34 0.34
47 2 0.02
48 12 0.12
49 10 0.10
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACACGAAGATGT
Found at i:31944412 original size:31 final size:31
Alignment explanation
Indices: 31944377--31944446 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
31944367 TGAGGACACG
31944377 GGCGTGTGTGACCACACGGCCTACCCGCACA
1 GGCGTGTGTGACCACACGGCCTACCCGCACA
*
31944408 GGCGTGTGTGACCACACGGCCTACCCGCACG
1 GGCGTGTGTGACCACACGGCCTACCCGCACA
31944439 GGCGTGTG
1 GGCGTGTG
31944447 ACCCTGTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.16, C:0.36, G:0.34, T:0.14
Consensus pattern (31 bp):
GGCGTGTGTGACCACACGGCCTACCCGCACA
Found at i:31947358 original size:20 final size:20
Alignment explanation
Indices: 31947333--31947371 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
31947323 CCGTGTATTC
31947333 ATTTGTTGCAATGTAAAAAT
1 ATTTGTTGCAATGTAAAAAT
31947353 ATTTGTTGCAATGTAAAAA
1 ATTTGTTGCAATGTAAAAA
31947372 CTTGAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
ATTTGTTGCAATGTAAAAAT
Found at i:31948462 original size:18 final size:18
Alignment explanation
Indices: 31948439--31948488 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
31948429 TTGGAGAGTT
31948439 ACACGCCCGTGTGGTCAC
1 ACACGCCCGTGTGGTCAC
31948457 ACACGCCCGTGTGGTCAC
1 ACACGCCCGTGTGGTCAC
31948475 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
31948489 CTCAGGACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.16, C:0.38, G:0.30, T:0.16
Consensus pattern (18 bp):
ACACGCCCGTGTGGTCAC
Found at i:31952498 original size:28 final size:28
Alignment explanation
Indices: 31952462--31952614 Score: 173
Period size: 29 Copynumber: 5.4 Consensus size: 28
31952452 ACCCCTAGAT
* *
31952462 ACATGCATATGGCCCACTGGGCCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
*
31952490 TCATTCATATGGCCCA-TATGGCCCAATTC
1 ACATTCATATGGCCCACTA-GGCCCAA-TC
* * *
31952519 ATATTCTTATGGCCCACTAGGCCAAATTC
1 ACATTCATATGGCCCACTAGGCCCAA-TC
*
31952548 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCC-AATC
* **
31952577 ACATTTATATGGCCCGTTAGGCCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
31952605 ACATTCATAT
1 ACATTCATAT
31952615 TCATGCTCAC
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.01
28 34 0.32
29 68 0.64
30 4 0.04
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCCAATC
Found at i:31955583 original size:40 final size:39
Alignment explanation
Indices: 31955519--31955730 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 39
31955509 TCTTCGGAAT
* *
31955519 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
31955558 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
31955598 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
31955638 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
31955678 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
31955718 TTAGCCCGGATAT
1 TTAGCCCGGATAT
31955731 CATTCAAATG
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 10 0.07
40 131 0.89
41 7 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:31955646 original size:80 final size:80
Alignment explanation
Indices: 31955519--31955730 Score: 345
Period size: 80 Copynumber: 2.7 Consensus size: 80
31955509 TCTTCGGAAT
* * * * *
31955519 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
31955583 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
31955598 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
31955663 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
31955678 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
31955731 CATTCAAATG
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
79 4 0.03
80 118 0.97
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:31963657 original size:40 final size:39
Alignment explanation
Indices: 31963589--31963800 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 39
31963579 TCTTCGGAAT
* * *
31963589 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
* *
31963628 TTAGCCCGGATATATCAACTCGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
31963668 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
31963708 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
31963748 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
31963788 TTAGCCCGGATAT
1 TTAGCCCGGATAT
31963801 CATTCAAATG
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 10 0.07
40 128 0.88
41 7 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:31963716 original size:80 final size:80
Alignment explanation
Indices: 31963589--31963800 Score: 327
Period size: 80 Copynumber: 2.7 Consensus size: 80
31963579 TCTTCGGAAT
* * * * * * *
31963589 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGAGTCTTAGCCCGGATATATCAACTCGCAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
31963653 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
31963668 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
31963733 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
31963748 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
31963801 CATTCAAATG
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 116 0.97
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:31977783 original size:68 final size:67
Alignment explanation
Indices: 31977711--31977896 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 67
31977701 CATCATGTGT
* * *
31977711 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACC
31977773 ATGTAG
62 ATGTAG
** * * *
31977779 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
31977844 AG
66 AG
* * *
31977846 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATA-TGTAGCTAGGTCGCATGGGTGGATAC-AAGTG
31977897 TTCACCATGT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 25 0.25
67 31 0.31
68 15 0.15
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:31977816 original size:64 final size:64
Alignment explanation
Indices: 31977735--31977918 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
31977725 AGACATTATG
* *
31977735 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
31977799 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
31977864 AA
63 AA
* * * *
31977866 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
31977919 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:31984653 original size:16 final size:16
Alignment explanation
Indices: 31984632--31984699 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
31984622 TTTGGTTCGC
31984632 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
31984648 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
31984663 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
31984680 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
31984696 TGTA
1 TGTA
31984700 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:31984668 original size:32 final size:32
Alignment explanation
Indices: 31984632--31984699 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
31984622 TTTGGTTCGC
31984632 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
31984664 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
31984696 TGTA
1 TGTA
31984700 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:31985036 original size:157 final size:157
Alignment explanation
Indices: 31984829--31985138 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
31984819 CCCTTAGCAT
*
31984829 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
31984894 TAATGAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
31984959 TTTAATAAAATTCTTAATAATTACCAA
131 TTTAATAAAATTCTTAATAATTACCAA
* * * *
31984986 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
31985051 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
31985116 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
31985139 ATATTCTTAT
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAA
Found at i:31988866 original size:15 final size:15
Alignment explanation
Indices: 31988846--31988880 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31988836 ACTGTTTTTC
*
31988846 ATAAAACAGTCGTTA
1 ATAAAACAGTCATTA
*
31988861 ATAAAACATTCATTA
1 ATAAAACAGTCATTA
31988876 ATAAA
1 ATAAA
31988881 CACTGGAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAAAACAGTCATTA
Found at i:31992888 original size:49 final size:49
Alignment explanation
Indices: 31992783--31993009 Score: 413
Period size: 49 Copynumber: 4.7 Consensus size: 49
31992773 AAGATAGTAA
*
31992783 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
31992830 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
31992879 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
31992928 GGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
31992977 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
31993010 CCCGAAGGGC
Statistics
Matches: 174, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
47 33 0.19
49 137 0.79
50 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:31993183 original size:37 final size:37
Alignment explanation
Indices: 31993127--31993205 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31993117 CTGAGCTCTA
* *
31993127 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
31993164 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31993201 AAGAC
1 AAGAC
31993206 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:32003230 original size:42 final size:42
Alignment explanation
Indices: 32003183--32003304 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 42
32003173 CGATATGTGT
*
32003183 TTTTGTGTAAGACCACGTCTGGGGCATTGGCATTGTATTTGA
1 TTTTGTGTAAGACCACGTCTGGGACATTGGCATTGTATTTGA
* * * **
32003225 TTTTGTGTAAGACGC-TGTCTGGTACAGTGGCATCAATATTTGA
1 TTTTGTGTAAGAC-CACGTCTGGGACATTGGCAT-TGTATTTGA
*** * *
32003268 TTACATGTAAGACCACGTTTGGGACGTTGGCATTGTA
1 TTTTGTGTAAGACCACGTCTGGGACATTGGCATTGTA
32003305 CGAGCTTTTT
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (42 bp):
TTTTGTGTAAGACCACGTCTGGGACATTGGCATTGTATTTGA
Found at i:32008890 original size:46 final size:46
Alignment explanation
Indices: 32008833--32009098 Score: 156
Period size: 46 Copynumber: 5.7 Consensus size: 46
32008823 TTGGGCATCC
32008833 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * * * * *
32008879 GAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GTTG-TAACTAGGCATCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* * * *
32008926 GAGCTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * * *
32008972 AAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATG-TAACTAGGCATCT
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TCT
* * * *
32009019 GAGCTCATTGAGTTGACTCCGAGTTCACTTATGGATGCAAACG-CT
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
32009064 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
32009099 GTGGGTTACA
Statistics
Matches: 164, Mismatches: 35, Indels: 42
0.68 0.15 0.17
Matches are distributed among these distances:
42 8 0.05
43 8 0.05
45 7 0.04
46 77 0.47
47 44 0.27
48 5 0.03
50 7 0.04
51 8 0.05
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (46 bp):
GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:32008985 original size:93 final size:93
Alignment explanation
Indices: 32008826--32009090 Score: 397
Period size: 93 Copynumber: 2.8 Consensus size: 93
32008816 CGGATATTTG
* * *
32008826 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
32008891 TTGAGTCCAAGTTCGTGAGTTGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
32008919 GGCATCCGAGCTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
32008984 TTGAGTCTGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
32009012 GGCATCTGAGCTCATTGAGTTGACTCCGAGTTCACTTATGGATGCAAACG-CTCGAGCTCGTTGA
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGA
32009076 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
32009091 ACTTATGGGT
Statistics
Matches: 154, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
92 1 0.01
93 153 0.99
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:32017367 original size:93 final size:92
Alignment explanation
Indices: 32017255--32017424 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 92
32017245 GCCCATAAGT
* * * * *
32017255 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGTATCCATAAGTGAACTCGGACTCAGCTCA
1 GAACTCGGACTCAACTCAACAAG-TTCGGACATTCGCATCCATAAGTGAACTCGGA-TCAACTCA
32017319 ACGAGTTCGGATGCCTAGTTACATTTCAC
64 ACGAGTTCGGATGCCTAGTTACATTTCAC
32017348 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGATCAACTCAAC
1 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGATCAACTCAAC
32017413 GAGTTCGGATGC
66 GAGTTCGGATGC
32017425 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
92 23 0.32
93 48 0.68
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGATCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:32017440 original size:45 final size:45
Alignment explanation
Indices: 32017247--32017432 Score: 123
Period size: 46 Copynumber: 4.1 Consensus size: 45
32017237 TGTAACCCGC
* * ** * * *
32017247 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAG-TTCGGAATGCGCAA
* *
32017293 CCATAAGTGAACTCGGACTCAGCTCAACGAGTTCGG-ATGC-CTAGTTA
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGAATGCGC-A---A
* * * *
32017340 -CATTTCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA-ATGCGCAA
* *
32017386 CCATAAGTGAACTCGGA-TCAACTCAACGAGTTCGG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAA
32017429 CCAT
1 CCAT
32017433 CCTAGTGACA
Statistics
Matches: 111, Mismatches: 18, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
43 9 0.08
44 3 0.03
45 23 0.21
46 41 0.37
47 28 0.25
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAA
Found at i:32019924 original size:43 final size:44
Alignment explanation
Indices: 32019858--32020076 Score: 311
Period size: 45 Copynumber: 5.0 Consensus size: 44
32019848 CCAAATTCAT
* *
32019858 TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAATAGT-ATC
*
32019900 TCACCAGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCG-AAGCCCGAATAGTATC
*
32019945 TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAATAGTATC
*
32019988 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGAATAGTATC
* *
32020033 TCACCGGCATTATAGCCTGCTATGCTCAGAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTC-GAAGCCCGAATAGTAT
32020077 TGTGCGATAT
Statistics
Matches: 160, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
42 10 0.06
43 42 0.26
44 38 0.24
45 68 0.43
46 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAATAGTATC
Found at i:32020027 original size:88 final size:88
Alignment explanation
Indices: 32019858--32020076 Score: 336
Period size: 88 Copynumber: 2.5 Consensus size: 88
32019848 CCAAATTCAT
*
32019858 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCG-ATA-TCATTTCACCAGCATTATAGCCTGCT
1 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGT-ATCTCACCAGCATTATAGCCTGCT
32019921 AGGCTCGAAAGCCCGAATAGTATC
65 AGGCTCGAAAGCCCGAATAGTATC
*
32019945 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCGGCATTATAGCCTGCTA
1 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCAGCATTATAGCCTGCTA
32020010 GGCTC-AAAGGCCCGAATAGTATC
66 GGCTCGAAA-GCCCGAATAGTATC
* * *
32020033 TCACCGGCATTATAGCCTGCTATGCTCAGAGGCCCGAATAGTAT
1 TCACCGGCATT-TCGCCTGCTAGGCTC-GAAGCCCGAATAGTAT
32020077 TGTGCGATAT
Statistics
Matches: 122, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
87 37 0.30
88 56 0.46
89 14 0.11
90 15 0.12
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (88 bp):
TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCAGCATTATAGCCTGCTA
GGCTCGAAAGCCCGAATAGTATC
Found at i:32026506 original size:23 final size:23
Alignment explanation
Indices: 32026466--32026511 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32026456 GAGCTGATGG
* *
32026466 ACAGTAAGCACTATTGAGCTGAA
1 ACAGTAAACACTAATGAGCTGAA
* *
32026489 ACAGTAAACTCTAATGAGTTGAA
1 ACAGTAAACACTAATGAGCTGAA
32026512 CAATAAGCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (23 bp):
ACAGTAAACACTAATGAGCTGAA
Found at i:32029428 original size:18 final size:18
Alignment explanation
Indices: 32029384--32029428 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
32029374 AAATAGTATC
* *
32029384 GTAACAATAATCAGTGCA
1 GTAACAGTAATCAATGCA
* *
32029402 GTAATAGTAATCAATGTA
1 GTAACAGTAATCAATGCA
32029420 GTAACAGTA
1 GTAACAGTA
32029429 TACAAGTCCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (18 bp):
GTAACAGTAATCAATGCA
Found at i:32029799 original size:27 final size:27
Alignment explanation
Indices: 32029767--32029963 Score: 261
Period size: 27 Copynumber: 7.3 Consensus size: 27
32029757 GGGGCATATT
*
32029767 AGTCATCTTACCATATAAGGGCAAAAC
1 AGTCATTTTACCATATAAGGGCAAAAC
* *
32029794 AATCATTTTACCATATAAGGGCAAAAT
1 AGTCATTTTACCATATAAGGGCAAAAC
* *
32029821 AGTCATTTTACCACATAAGGGCAAAAT
1 AGTCATTTTACCATATAAGGGCAAAAC
* *
32029848 AGTCATTTTACCACATAAAGGCAAAAC
1 AGTCATTTTACCATATAAGGGCAAAAC
*
32029875 AGTCATTTTACCACATAAGGGCAAAAC
1 AGTCATTTTACCATATAAGGGCAAAAC
* *
32029902 AGTCATTTTACCTTATAAGGGCAAAAT
1 AGTCATTTTACCATATAAGGGCAAAAC
* *
32029929 AGTCATTTTACCCTATAAAGGG-AAAAT
1 AGTCATTTTACCATAT-AAGGGCAAAAC
*
32029956 AGTGATTT
1 AGTCATTT
32029964 CATCGAATTG
Statistics
Matches: 156, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
27 151 0.97
28 5 0.03
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (27 bp):
AGTCATTTTACCATATAAGGGCAAAAC
Found at i:32033370 original size:27 final size:26
Alignment explanation
Indices: 32033336--32033652 Score: 330
Period size: 27 Copynumber: 11.8 Consensus size: 26
32033326 CATACATCAC
* * *
32033336 ATAAGGGCATATCAGTCATCTTACCAT
1 ATAAGGGCAAAACAGTCATTTTACC-T
32033363 ATAAGGGCAAAACAGTCATTTTACCT
1 ATAAGGGCAAAACAGTCATTTTACCT
* * *
32033389 CATAAGGGAAAAAATAGTCATTTTACCAC
1 -ATAAGGG-CAAAACAGTCATTTTACC-T
* *
32033418 ATAAGGGCAAAATAATCATTTTACCT
1 ATAAGGGCAAAACAGTCATTTTACCT
* *
32033444 ATAAGGGCAAAACAATCATTTTACCCC
1 ATAAGGGCAAAACAGTCATTTTA-CCT
*
32033471 ATAAGGGCAAAACAGTCATTTTACCCC
1 ATAAGGGCAAAACAGTCATTTTA-CCT
* *
32033498 ATAAGGGAAAAACAATCATTTTACCTT
1 ATAAGGGCAAAACAGTCATTTTACC-T
* * *
32033525 ATAAGGGCAAAACAATCATTTCAACCC
1 ATAAGGGCAAAACAGTCATTT-TACCT
*
32033552 ATAAGGGCAAAACAGTCATTTTACCC
1 ATAAGGGCAAAACAGTCATTTTACCT
* * *
32033578 ATAAGGACAAAACAATCATTTCACCTT
1 ATAAGGGCAAAACAGTCATTTTACC-T
* *
32033605 ACAAGGG-AAACACAGTCATTTTACCCC
1 ATAAGGGCAAA-ACAGTCATTTTA-CCT
32033632 ATAAGGGCAAAACAGTCATTT
1 ATAAGGGCAAAACAGTCATTT
32033653 CATTAAATTA
Statistics
Matches: 250, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
26 54 0.22
27 165 0.66
28 31 0.12
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (26 bp):
ATAAGGGCAAAACAGTCATTTTACCT
Found at i:32033523 original size:80 final size:81
Alignment explanation
Indices: 32033351--32033652 Score: 423
Period size: 80 Copynumber: 3.7 Consensus size: 81
32033341 GGCATATCAG
* * * * * *
32033351 TCATCTTACCATATAAGGGCAAAACAGTCATTTTACCTCATAAGGGAAAAAATAGTCATTTTACC
1 TCATTTTACCTTATAAGGGCAAAACAATCATTTTACCCCATAAGGG-CAAAACAGTCATTTTACC
* * *
32033416 ACATAAGGGCAAAATAA
65 CCATAAGGGAAAAACAA
32033433 TCATTTTACC-TATAAGGGCAAAACAATCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCC
1 TCATTTTACCTTATAAGGGCAAAACAATCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCC
32033497 CATAAGGGAAAAACAA
66 CATAAGGGAAAAACAA
* *
32033513 TCATTTTACCTTATAAGGGCAAAACAATCATTTCAACCCATAAGGGCAAAACAGTCATTTTA-CC
1 TCATTTTACCTTATAAGGGCAAAACAATCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCC
32033577 CATAA-GGACAAAACAA
66 CATAAGGGA-AAAACAA
* * *
32033593 TCATTTCACCTTACAAGGG-AAACACAGTCATTTTACCCCATAAGGGCAAAACAGTCATTT
1 TCATTTTACCTTATAAGGGCAAA-ACAATCATTTTACCCCATAAGGGCAAAACAGTCATTT
32033653 CATTAAATTA
Statistics
Matches: 202, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
79 6 0.03
80 105 0.52
81 82 0.41
82 9 0.04
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.25
Consensus pattern (81 bp):
TCATTTTACCTTATAAGGGCAAAACAATCATTTTACCCCATAAGGGCAAAACAGTCATTTTACCC
CATAAGGGAAAAACAA
Found at i:32034528 original size:13 final size:13
Alignment explanation
Indices: 32034510--32034534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32034500 CCAAAAATCG
32034510 AAAGAGGAGAAGC
1 AAAGAGGAGAAGC
32034523 AAAGAGGAGAAG
1 AAAGAGGAGAAG
32034535 AAGTATACAA
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:0.56, C:0.04, G:0.40, T:0.00
Consensus pattern (13 bp):
AAAGAGGAGAAGC
Found at i:32036521 original size:16 final size:16
Alignment explanation
Indices: 32036496--32036526 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32036486 CAACAGTCAT
*
32036496 ATAAATAGATAAACAG
1 ATAAAAAGATAAACAG
32036512 ATAAAAAGATAAACA
1 ATAAAAAGATAAACA
32036527 ACCATATAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.10, T:0.16
Consensus pattern (16 bp):
ATAAAAAGATAAACAG
Found at i:32036771 original size:18 final size:18
Alignment explanation
Indices: 32036750--32036799 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
32036740 AAACAGTTCC
* *
32036750 GTAACAGTAATCATTGTA
1 GTAACAGTAAACAATGTA
*
32036768 GTAATAGTAAACAATGTA
1 GTAACAGTAAACAATGTA
*
32036786 GTAACAGTATACAA
1 GTAACAGTAAACAA
32036800 GTCTACCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (18 bp):
GTAACAGTAAACAATGTA
Found at i:32037162 original size:27 final size:27
Alignment explanation
Indices: 32037124--32037399 Score: 284
Period size: 27 Copynumber: 10.3 Consensus size: 27
32037114 ATCACATACA
* * **
32037124 GGCAAATCAGTCATCTTACCTTATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* *
32037151 GGCAAAACAGTCATTTTACCTCATTAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* * **
32037178 GGGAAAACAATCATTTTACCATATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* *
32037205 GGCAAAACATTCATTTTACCCCATAAT
1 GGCAAAACAGTCATTTTACCCCATAAG
*
32037232 GGCAAAACAATCATTTTACCCCATAA-
1 GGCAAAACAGTCATTTTACCCCATAAG
* * *
32037258 TGAAAAATAGTCATTTTACCCCATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* *
32037285 AGCAAAACAGTCATTTTACCACATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* * **
32037312 GGCAAAATAGTCATTTTAACTTATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
*
32037339 GGCAAAACAGTCATTTCACCCCATAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
* * * * *
32037366 GGAAAAAGAATCATTTAACCCCGTAAG
1 GGCAAAACAGTCATTTTACCCCATAAG
*
32037393 GGAAAAA
1 GGCAAAA
32037400 TAATTACTTC
Statistics
Matches: 210, Mismatches: 38, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.10
27 188 0.90
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (27 bp):
GGCAAAACAGTCATTTTACCCCATAAG
Found at i:32037311 original size:107 final size:108
Alignment explanation
Indices: 32037146--32037392 Score: 298
Period size: 107 Copynumber: 2.3 Consensus size: 108
32037136 ATCTTACCTT
* * * * * *
32037146 ATAAGGGCAAAACAGTCATTTTACCTCATTAGGGGAAAACAATCATTTTACCATATAAGGGCAAA
1 ATAAGGGAAAAACAGTCATTTTACCCCATAAGAGCAAAACAATCATTTTACCACATAAGGGCAAA
* * * *
32037211 ACATTCATTTTACCCCATAATGGCAAAACAATCATTTTACCCC
66 ACAGTCATTTTAACCCATAAGGGCAAAACAATCATTTCACCCC
* * *
32037254 ATAA-TGAAAAATAGTCATTTTACCCCATAAGAGCAAAACAGTCATTTTACCACATAAGGGCAAA
1 ATAAGGGAAAAACAGTCATTTTACCCCATAAGAGCAAAACAATCATTTTACCACATAAGGGCAAA
* ** *
32037318 ATAGTCATTTTAACTTATAAGGGCAAAACAGTCATTTCACCCC
66 ACAGTCATTTTAACCCATAAGGGCAAAACAATCATTTCACCCC
* * * *
32037361 ATAAGGGAAAAAGAATCATTTAACCCCGTAAG
1 ATAAGGGAAAAACAGTCATTTTACCCCATAAG
32037393 GGAAAAATAA
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
107 90 0.78
108 26 0.22
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (108 bp):
ATAAGGGAAAAACAGTCATTTTACCCCATAAGAGCAAAACAATCATTTTACCACATAAGGGCAAA
ACAGTCATTTTAACCCATAAGGGCAAAACAATCATTTCACCCC
Found at i:32037378 original size:134 final size:135
Alignment explanation
Indices: 32037127--32037401 Score: 363
Period size: 134 Copynumber: 2.0 Consensus size: 135
32037117 ACATACAGGC
** * * * *
32037127 AAATCAGTCATCTTACCTTATAAGGGCAAAACAGTCATTTTACCTCATTAGGGGAAAACAATCAT
1 AAAT-AGTCATCTTACCCCATAAGAGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCAT
* * * * * *
32037192 TTTACCATATAAGGGCAAAACATTCATTTTACCCCATAATGGCAAAACAATCATTTTACCCCATA
65 TTTAACATATAAGGGCAAAACAGTCATTTCACCCCATAAGGGAAAAACAATCATTTAACCCCATA
*
32037257 A-TGAA
130 AGGGAA
* * *
32037262 AAATAGTCATTTTACCCCATAAGAGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATT
1 AAATAGTCATCTTACCCCATAAGAGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATT
* * *
32037327 TTAACTTATAAGGGCAAAACAGTCATTTCACCCCATAAGGGAAAAAGAATCATTTAACCCCGTAA
66 TTAACATATAAGGGCAAAACAGTCATTTCACCCCATAAGGGAAAAACAATCATTTAACCCCATAA
32037392 GGGAA
131 GGGAA
32037397 AAATA
1 AAATA
32037402 ATTACTTCAT
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
134 108 0.90
135 12 0.10
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (135 bp):
AAATAGTCATCTTACCCCATAAGAGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATT
TTAACATATAAGGGCAAAACAGTCATTTCACCCCATAAGGGAAAAACAATCATTTAACCCCATAA
GGGAA
Found at i:32040917 original size:27 final size:27
Alignment explanation
Indices: 32040887--32041034 Score: 170
Period size: 27 Copynumber: 5.5 Consensus size: 27
32040877 ATATAAGGTT
* *
32040887 AAAATAGTCATTTTACCTCATAAGGGC
1 AAAACAGTCATTTTACCCCATAAGGGC
* * * *
32040914 AAAAAAATTATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCCCATAAGGGC
* * ***
32040941 AAAACAATCATTTTACCTCACCTGGGC
1 AAAACAGTCATTTTACCCCATAAGGGC
*
32040968 AAAACAGTCATTTTACCCCATAAGGAC
1 AAAACAGTCATTTTACCCCATAAGGGC
*
32040995 AAAACAGTCATTTTACCCCATAAGGGT
1 AAAACAGTCATTTTACCCCATAAGGGC
*
32041022 AAAATAGTCATTT
1 AAAACAGTCATTT
32041035 CATCAAATTA
Statistics
Matches: 102, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (27 bp):
AAAACAGTCATTTTACCCCATAAGGGC
Found at i:32040931 original size:54 final size:54
Alignment explanation
Indices: 32040867--32041034 Score: 174
Period size: 54 Copynumber: 3.1 Consensus size: 54
32040857 GGCATATCGG
* * ** *
32040867 TCATCTTACCATATAAGGTTAAAATAGTCATTTTACCTCATAAGGGCAAAAAAA
1 TCATTTTACCACATAAGGACAAAACAGTCATTTTACCTCATAAGGGCAAAAAAA
* * * *** * *
32040921 TTATTTTACCACATAAGGGCAAAACAATCATTTTACCTCACCTGGGCAAAACAG
1 TCATTTTACCACATAAGGACAAAACAGTCATTTTACCTCATAAGGGCAAAAAAA
* * * * *
32040975 TCATTTTACCCCATAAGGACAAAACAGTCATTTTACCCCATAAGGGTAAAATAG
1 TCATTTTACCACATAAGGACAAAACAGTCATTTTACCTCATAAGGGCAAAAAAA
32041029 TCATTT
1 TCATTT
32041035 CATCAAATTA
Statistics
Matches: 92, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (54 bp):
TCATTTTACCACATAAGGACAAAACAGTCATTTTACCTCATAAGGGCAAAAAAA
Found at i:32041182 original size:17 final size:18
Alignment explanation
Indices: 32041150--32041184 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
32041140 CCCATAGTGC
32041150 GGCCCATGTAGGCCTACA
1 GGCCCATGTAGGCCTACA
*
32041168 GGCCCGTGT-GGCCTACA
1 GGCCCATGTAGGCCTACA
32041185 AAGCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.34, G:0.31, T:0.17
Consensus pattern (18 bp):
GGCCCATGTAGGCCTACA
Found at i:32048911 original size:59 final size:59
Alignment explanation
Indices: 32048819--32048943 Score: 214
Period size: 59 Copynumber: 2.1 Consensus size: 59
32048809 CTTAGGTTAG
*
32048819 TTATCATACATTCCGTGTTAAATCAAGATTAGGAAAACCTTATACCCATTACATAACTA
1 TTATCATACATTCCGTGTTAAATCAAGATTAGGAAAACCTCATACCCATTACATAACTA
* *
32048878 TTATCATACATTCCGTGTTAAATCAATATTAGGAAAACCTCATACCCATTACATTACTA
1 TTATCATACATTCCGTGTTAAATCAAGATTAGGAAAACCTCATACCCATTACATAACTA
*
32048937 TTCTCAT
1 TTATCAT
32048944 TCTCATGGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (59 bp):
TTATCATACATTCCGTGTTAAATCAAGATTAGGAAAACCTCATACCCATTACATAACTA
Found at i:32052347 original size:15 final size:15
Alignment explanation
Indices: 32052329--32052358 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32052319 AGAGAATAGG
32052329 GAGTAAGGAATTACT
1 GAGTAAGGAATTACT
32052344 GAGTAAGGAATTACT
1 GAGTAAGGAATTACT
32052359 CCAAGGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
GAGTAAGGAATTACT
Found at i:32053515 original size:18 final size:18
Alignment explanation
Indices: 32053492--32053542 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
32053482 AACAATAAAT
32053492 AGTGCAGTAATAGTAATC
1 AGTGCAGTAATAGTAATC
*
32053510 AGTGCAGTAATAGTGATC
1 AGTGCAGTAATAGTAATC
* *
32053528 AATGAAGTAATAGTA
1 AGTGCAGTAATAGTA
32053543 TACAAGTCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (18 bp):
AGTGCAGTAATAGTAATC
Found at i:32053956 original size:54 final size:54
Alignment explanation
Indices: 32053879--32054169 Score: 372
Period size: 54 Copynumber: 5.4 Consensus size: 54
32053869 AGGGGCATAT
* * *
32053879 CAATCATCTTACCATATAGGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
* * * * *
32053933 TAATCATTTTACCACAAAAGGGCAAGACAGTCATTTTACCTCATAAGGGTAAAA
1 CAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
* * *
32053987 TAGTCATTTTACTC-CATAAGGGAAAAACAATCATTTT-CCTCCATAAAGGGCAAAA
1 CAATCATTTTAC-CACATAAGGGCAAAACAATCATTTTACCT-CAT-AAGGGCAAAA
*
32054042 CAATCATTTTACCACATAAGAGCAAAACAATCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
* * * *
32054096 CAGTCATTTTACC-CTATAAAGGCAAAATAGTCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCAC-ATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
*
32054150 CAATCATTTTACCCCATAAG
1 CAATCATTTTACCACATAAG
32054170 CGAAAAATAG
Statistics
Matches: 205, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.02
54 153 0.75
55 45 0.22
56 3 0.01
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (54 bp):
CAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAA
Found at i:32054142 original size:136 final size:136
Alignment explanation
Indices: 32053898--32054168 Score: 413
Period size: 136 Copynumber: 2.0 Consensus size: 136
32053888 TACCATATAG
* * * *
32053898 GGGCAAAACAATCATTTTACCTCATAAGGGCAAAATAATCATTTTACCACAAAAGGGCAAGACAG
1 GGGCAAAACAATCATTTTACCACATAAGAGCAAAACAATCATTTTACCACAAAAGGGCAAAACAG
* *
32053963 TCATTTTACCTCATAAGGGTAAAATAGTCATTTTACTCCATAAGGGAAAAACAATCATTTT-CCT
66 TCATTTTACCTCATAAAGGCAAAATAGTCATTTTACTCCATAAGGGAAAAACAATCATTTTACC-
32054027 CCATAAA
130 CCATAAA
* *
32054034 GGGCAAAACAATCATTTTACCACATAAGAGCAAAACAATCATTTTACCTCATAAGGGCAAAACAG
1 GGGCAAAACAATCATTTTACCACATAAGAGCAAAACAATCATTTTACCACAAAAGGGCAAAACAG
*
32054099 TCATTTTACC-CTATAAAGGCAAAATAGTCATTTTAC-CTCATAAGGGCAAAACAATCATTTTAC
66 TCATTTTACCTC-ATAAAGGCAAAATAGTCATTTTACTC-CATAAGGGAAAAACAATCATTTTAC
32054162 CCCATAA
129 CCCATAA
32054169 GCGAAAAATA
Statistics
Matches: 123, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
135 2 0.02
136 119 0.97
137 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (136 bp):
GGGCAAAACAATCATTTTACCACATAAGAGCAAAACAATCATTTTACCACAAAAGGGCAAAACAG
TCATTTTACCTCATAAAGGCAAAATAGTCATTTTACTCCATAAGGGAAAAACAATCATTTTACCC
CATAAA
Found at i:32054185 original size:27 final size:27
Alignment explanation
Indices: 32053879--32054169 Score: 332
Period size: 27 Copynumber: 10.7 Consensus size: 27
32053869 AGGGGCATAT
* ** *
32053879 CAATCATCTTACCATATAGGGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
*
32053906 CAATCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
* * * *
32053933 TAATCATTTTACCACAAAAGGGCAAGA
1 CAATCATTTTACCCCATAAGGGCAAAA
* * *
32053960 CAGTCATTTTACCTCATAAGGGTAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
* * * *
32053987 TAGTCATTTTACTCCATAAGGGAAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
32054014 CAATCATTTT-CCTCCATAAAGGGCAAAA
1 CAATCATTTTACC-CCAT-AAGGGCAAAA
* *
32054042 CAATCATTTTACCACATAAGAGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
*
32054069 CAATCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
* * *
32054096 CAGTCATTTTACCCTATAAAGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
* * *
32054123 TAGTCATTTTACCTCATAAGGGCAAAA
1 CAATCATTTTACCCCATAAGGGCAAAA
32054150 CAATCATTTTACCCCATAAG
1 CAATCATTTTACCCCATAAG
32054170 CGAAAAATAG
Statistics
Matches: 224, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 199 0.89
28 22 0.10
29 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (27 bp):
CAATCATTTTACCCCATAAGGGCAAAA
Found at i:32058707 original size:64 final size:63
Alignment explanation
Indices: 32058626--32058809 Score: 167
Period size: 67 Copynumber: 2.8 Consensus size: 63
32058616 AGACATTATG
* *
32058626 ATGTAGCTAGGTCGCATGGGCGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGG-GATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
32058690 ATGTAGCTAGGTCGCATGCATGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATG--GGGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
32058755 AA
62 AA
* * * *
32058757 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGG-GATACTATGTGTACACCATGTAG-ACAAGAGAGC
32058810 CGAACTATAT
Statistics
Matches: 96, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 15 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:32065178 original size:21 final size:21
Alignment explanation
Indices: 32065153--32065195 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32065143 TGCCTTCCCA
32065153 AAAACCAACCGATAAGGAGTC
1 AAAACCAACCGATAAGGAGTC
32065174 AAAACCAACCGATAAGGAGTC
1 AAAACCAACCGATAAGGAGTC
32065195 A
1 A
32065196 TTCCTTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.23, G:0.19, T:0.09
Consensus pattern (21 bp):
AAAACCAACCGATAAGGAGTC
Found at i:32072727 original size:13 final size:13
Alignment explanation
Indices: 32072709--32072735 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32072699 GCTTGGCAGG
32072709 GACACGCCCGTGT
1 GACACGCCCGTGT
32072722 GACACGCCCGTGT
1 GACACGCCCGTGT
32072735 G
1 G
32072736 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:32082196 original size:26 final size:24
Alignment explanation
Indices: 32082058--32082198 Score: 87
Period size: 23 Copynumber: 5.8 Consensus size: 24
32082048 TTCGAGCTAT
* *
32082058 GAACAGTAAGCTCCTCCTAAGCTGA
1 GAACAGTAAGCTCATAC-AAGCTGA
**
32082083 TG-ACAGTAAGCTC-TATTGAGCT-A
1 -GAACAGTAAGCTCATA-CAAGCTGA
* *
32082106 AAACGGTAAGCTC-TAACAAGCT-A
1 GAACAGTAAGCTCAT-ACAAGCTGA
*
32082129 GAACAGTAAGCTCATACGAGCTGA
1 GAACAGTAAGCTCATACAAGCTGA
*
32082153 GAACAGTAA-CTTCTTACAAGCTGA
1 GAACAGTAAGC-TCATACAAGCTGA
* *
32082177 TATATCGGTAAGCTCATACAAG
1 GA-A-CAGTAAGCTCATACAAG
32082199 ATGCGGTGAG
Statistics
Matches: 91, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
23 35 0.38
24 29 0.32
25 12 0.13
26 14 0.15
27 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (24 bp):
GAACAGTAAGCTCATACAAGCTGA
Done.