Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 93 of 335
Found at i:30106910 original size:17 final size:18
Alignment explanation
Indices: 30106878--30106914 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30106868 AAATGTAAAG
*
30106878 ATAGATAATTTAAATGAA
1 ATAGATAATGTAAATGAA
30106896 ATAGA-AATGTAAATGAA
1 ATAGATAATGTAAATGAA
30106913 AT
1 AT
30106915 GCAAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.30
Consensus pattern (18 bp):
ATAGATAATGTAAATGAA
Found at i:30109480 original size:85 final size:86
Alignment explanation
Indices: 30109391--30109630 Score: 242
Period size: 89 Copynumber: 2.7 Consensus size: 86
30109381 AGAAATTGAC
30109391 AAATTAAATTTACAAACACAATAAAATACAAACATTCTAAAATATTAATACA-AAAAA-TAAAAT
1 AAATTAAATTTACAAACACAA-AAAATACAAACATTCTAAAA-ATTAATACACAAAAATTAAAAT
30109454 TAAAAC-A-AAAATAATACGCACT
64 TAAAACTACAAAA-AATACGCACT
* * *
30109476 AAATTAAATTTA-AACACCCAAAAAACTACAAACATATGGGT-AAAATTAATACACAAAAATTTT
1 AAATTAAATTTACAA-ACACAAAAAA-TACAAACAT-T--CTAAAAATTAATACACAAAAA-TTA
* * * *
30109539 AAATTCAAACTACATAAAATATGGACT
60 AAATTAAAACTACAAAAAATACGCACT
*
30109566 AAATTAAATTTACAGATACA-AAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAA
1 AAATTAAATTTACA-A-ACACAAAAAATACAAACATTCTAA-AAATTAATACACAAAAAT-TAAA
30109630 A
62 A
30109631 AATGAATCCT
Statistics
Matches: 128, Mismatches: 12, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
84 6 0.05
85 26 0.20
86 10 0.08
87 9 0.07
88 3 0.02
89 31 0.24
90 30 0.23
91 10 0.08
92 3 0.02
ACGTcount: A:0.59, C:0.13, G:0.04, T:0.24
Consensus pattern (86 bp):
AAATTAAATTTACAAACACAAAAAATACAAACATTCTAAAAATTAATACACAAAAATTAAAATTA
AAACTACAAAAAATACGCACT
Found at i:30110178 original size:27 final size:27
Alignment explanation
Indices: 30110137--30110202 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
30110127 TTCGATTGTA
* *
30110137 CACTACAAAAAACTCTCATCTACAATC
1 CACTACAAAAAACTCCCATATACAATC
*
30110164 CATTACAAAAAACTCCCATATACAATC
1 CACTACAAAAAACTCCCATATACAATC
30110191 CACTACAAAAAA
1 CACTACAAAAAA
30110203 AAAAACTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (27 bp):
CACTACAAAAAACTCCCATATACAATC
Found at i:30110470 original size:52 final size:48
Alignment explanation
Indices: 30110397--30110503 Score: 135
Period size: 52 Copynumber: 2.1 Consensus size: 48
30110387 CCAGCAACGA
**
30110397 TTTTTTTTTTTACTCTGGTGTCAGTCAATA-AGTGCCCAACACTCCAAATT
1 TTTTTTTTTTTACTCTGGTGTCAACCAATATA-TGCCCAACAC-CC-AATT
*
30110447 TTTTTTTTTTTCATTTCTGGTGTCAACCAATATATGCCCAACACCCAATT
1 TTTTTTTTTTT-A-CTCTGGTGTCAACCAATATATGCCCAACACCCAATT
30110497 TTTTTTT
1 TTTTTTT
30110504 AAATTTAATG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
50 22 0.43
51 3 0.06
52 25 0.49
53 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.47
Consensus pattern (48 bp):
TTTTTTTTTTTACTCTGGTGTCAACCAATATATGCCCAACACCCAATT
Found at i:30110769 original size:112 final size:111
Alignment explanation
Indices: 30110512--30110829 Score: 320
Period size: 112 Copynumber: 2.8 Consensus size: 111
30110502 TTAAATTTAA
* * * *
30110512 TGGTGCCAACCATCAGTGTAGAAAAGTAAGAAAAAAATTACATTGGTACACGAAAAAAGTCTCTG
1 TGGTGCCAGCTATCAGTGTAGAAAAGTAAAAAAAAAATTGCATTGG-ACACGAAAAAAGTCTCTG
* ****** ** *
30110577 GTGCTGGCCATTAGAAGGCCAGAACCAAAACTTTTTTTTTGTTGGTC
65 GTGCTGGCCATTAAAAGGCCAGAACCAAAACAAAAAATTTACTAGTC
* * *
30110624 TGGTGCCAGCTATCAGTGTAGAAAAATACAAAAAAAATTGCATTAGGACACGAAAAAAGTCTGTG
1 TGGTGCCAGCTATCAGTGTAGAAAAGTAAAAAAAAAATTGCATT-GGACACGAAAAAAGTCTCTG
*
30110689 GTG-TGGGTCATTAAAAGGCCAGAACCAAAA-AAAAAATTTACTAGTC
65 GTGCT-GGCCATTAAAAGGCCAGAACCAAAACAAAAAATTTACTAGTC
* * * *
30110735 TGGTGTCGGCTATCAGTGTAGAAAAGTAAAAAAAAAAATTTGCGGTGGGACACGAAAAAAGTC-C
1 TGGTGCCAGCTATCAGTGTAGAAAAGT-AAAAAAAAAA-TTGC-ATTGGACACGAAAAAAGTCTC
* *
30110799 ATGGTGCCT-GCCATTAGAAGGCCAAAACCAA
63 -TGGTG-CTGGCCATTAAAAGGCCAGAACCAA
30110830 TTTTTTTTTA
Statistics
Matches: 170, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
111 32 0.19
112 90 0.53
113 46 0.27
114 1 0.01
115 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (111 bp):
TGGTGCCAGCTATCAGTGTAGAAAAGTAAAAAAAAAATTGCATTGGACACGAAAAAAGTCTCTGG
TGCTGGCCATTAAAAGGCCAGAACCAAAACAAAAAATTTACTAGTC
Found at i:30112480 original size:21 final size:21
Alignment explanation
Indices: 30112456--30112504 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
30112446 GCTGCCATCA
* *
30112456 CTGCTGTCTCTACCTCCCTCG
1 CTGCTGCCGCTACCTCCCTCG
* *
30112477 CTGCTACCGCTGCCTCCCTCG
1 CTGCTGCCGCTACCTCCCTCG
30112498 CTGCTGC
1 CTGCTGC
30112505 ATCCACTCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.04, C:0.49, G:0.18, T:0.29
Consensus pattern (21 bp):
CTGCTGCCGCTACCTCCCTCG
Found at i:30112942 original size:13 final size:14
Alignment explanation
Indices: 30112916--30112944 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30112906 ACTAACGACG
30112916 AATTAAATCATTAT
1 AATTAAATCATTAT
30112930 AATTAAA-CATTAT
1 AATTAAATCATTAT
30112943 AA
1 AA
30112945 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAATCATTAT
Found at i:30115010 original size:27 final size:27
Alignment explanation
Indices: 30114980--30115469 Score: 659
Period size: 27 Copynumber: 18.2 Consensus size: 27
30114970 AAAGTACTCC
30114980 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30115007 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
30115034 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30115061 CGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
30115088 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
30115115 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30115142 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
30115169 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
30115196 CGATTTGTAAAATTACCGATTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
30115223 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
30115250 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
30115277 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
30115304 C-AGTTTACAGAATTACTGTTTTGCCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
30115331 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
30115358 CGATTTGTAAAATTACC-TTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
30115384 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
30115411 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
30115438 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
30115465 TGATT
1 CGATT
30115470 GTGAAATTAC
Statistics
Matches: 405, Mismatches: 47, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
26 26 0.06
27 374 0.92
28 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:30115504 original size:27 final size:27
Alignment explanation
Indices: 30115474--30115668 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
30115464 TTGATTGTGA
30115474 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
30115501 AATTTCTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
30115528 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
30115555 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
30115582 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
30115609 AAATA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * * *
30115636 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
30115663 AATTAC
1 AATTAC
30115669 CATTTTGCCC
Statistics
Matches: 143, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:30115906 original size:27 final size:26
Alignment explanation
Indices: 30115868--30115922 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
30115858 CGGAGGAAGC
30115868 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
30115895 GTTCTGGTGGCTCTGCCGCAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
30115921 GT
1 GT
30115923 ATTTAGTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:30116070 original size:22 final size:22
Alignment explanation
Indices: 30116038--30116096 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
30116028 CCCGTTATTA
*
30116038 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
30116060 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
30116082 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
30116097 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:30116461 original size:6 final size:6
Alignment explanation
Indices: 30116452--30116614 Score: 140
Period size: 6 Copynumber: 26.8 Consensus size: 6
30116442 TTGCATTCAC
* * * *
30116452 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG -TTACTA ATACTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATT-CTG ATTCTG
* *
30116501 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
30116550 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACAG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
30116598 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
30116615 CATTTTGGTT
Statistics
Matches: 127, Mismatches: 16, Indels: 28
0.74 0.09 0.16
Matches are distributed among these distances:
5 9 0.07
6 107 0.84
7 8 0.06
8 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:30116539 original size:43 final size:42
Alignment explanation
Indices: 30116455--30116561 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 42
30116445 CATTCACATT
* * *
30116455 CTGATTCTGATTCTG-TCACGTAATTCTGATTCTGTTACTAATA
1 CTGATTCTGATTCTGAT-TC-TGATTCTGATTCTGTCACTAATA
*
30116498 CTGATTCTGATTCTGATTCTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGATTCTGATTCTGTCA-CTAATA
30116541 CTGATTCTGATTCTGATTCTG
1 CTGATTCTGATTCTGATTCTG
30116562 TTACTAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 15 0.26
43 42 0.72
44 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (42 bp):
CTGATTCTGATTCTGATTCTGATTCTGATTCTGTCACTAATA
Found at i:30116547 original size:61 final size:61
Alignment explanation
Indices: 30116452--30116614 Score: 210
Period size: 61 Copynumber: 2.7 Consensus size: 61
30116442 TTGCATTCAC
* *
30116452 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTG-TTACTAATACTGATT-CTGAT-TCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT-CTAATACTG-TTACTAATAT-TG
* *
30116513 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATACTGTTACTAATATTG
*
30116574 ATTCTGATTCTGATTCTGTTA-C-AGATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTCACCTA-ATTCTGATTCTGATTCT
30116615 CATTTTGGTT
Statistics
Matches: 93, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
59 1 0.01
60 20 0.22
61 69 0.74
62 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (61 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTAATACTGTTACTAATATTG
Found at i:30116632 original size:30 final size:29
Alignment explanation
Indices: 30116452--30116635 Score: 167
Period size: 30 Copynumber: 6.1 Consensus size: 29
30116442 TTGCATTCAC
30116452 ATTCTGATTCTGATTCTG-TCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTC-C--AATTCTG
* * **
30116483 ATTCTG-TTACTAATACTGATTCTGATTCTG
1 ATTCTGATT-CTGATTCTG-TTCCAATTCTG
*
30116513 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGT-TCC-AATTCTG
*
30116544 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTT-CCAAT-TCTG
*
30116574 ATTCTGATTCTGATTCTGTTACAGATTCTG
1 ATTCTGATTCTGATTCTGTTCCA-ATTCTG
* *
30116604 ATTCTGATTCTCATTTTGGTTCCAATTCTG
1 ATTCTGATTCTGATTCT-GTTCCAATTCTG
30116634 AT
1 AT
30116636 AATGTTTCTT
Statistics
Matches: 126, Mismatches: 16, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
29 3 0.02
30 74 0.59
31 47 0.37
33 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (29 bp):
ATTCTGATTCTGATTCTGTTCCAATTCTG
Found at i:30119747 original size:96 final size:93
Alignment explanation
Indices: 30119583--30119892 Score: 376
Period size: 96 Copynumber: 3.3 Consensus size: 93
30119573 ACATGATGCA
* * *
30119583 ATAGTGTCTTTCAACTACGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGCATCTTTCAAC
1 ATAGTATCTTTCAACTATGGTCTTACT-ATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* *
30119648 CATGGTCTTATTCTTTTCATGTCACGTTGCT
65 CATGGTCTTA--CTTTTCATATCACGTTGCC
* *
30119679 ATAGTGTCTTTAAACTATGGTCTTACTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 ATAGTATCTTTCAACTATGGTCTTAC-TATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
30119744 CATGGTCTTACATATTTCATATCACGTTGCC
65 CATGGTCTTAC-T-TTTCATATCACGTTGCC
* * * *
30119775 ATGGTATCTTTCAACAATGGTCTTAC-A--CA-TTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 ATAGTATCTTTCAACTATGGTCTTACTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAAC
* *
30119836 CATGGTCTTACACATTTCATATCAGGTTGCC
65 CATGGTCTT--ACTTTTCATATCACGTTGCC
* *
30119867 ATGGTATCTTTCAACCATGGTCTTAC
1 ATAGTATCTTTCAACTATGGTCTTAC
30119893 ACATTTCATA
Statistics
Matches: 194, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
91 4 0.02
92 77 0.40
94 4 0.02
95 1 0.01
96 107 0.55
97 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (93 bp):
ATAGTATCTTTCAACTATGGTCTTACTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACC
ATGGTCTTACTTTTCATATCACGTTGCC
Found at i:30119906 original size:46 final size:46
Alignment explanation
Indices: 30119627--30119906 Score: 364
Period size: 46 Copynumber: 6.0 Consensus size: 46
30119617 TTTCTGTCAT
* ** * * *
30119627 GTTGCCATGGCATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* * * * * * *
30119673 GTTGCTATAGTGTCTTTAAACTATGGTCTTACTTATTCATTTTC-TGTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTAC--A--CA-TTTCATATCAG
* *
30119723 GTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
30119769 GTTGCCATGGTATCTTTCAACAATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
30119815 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
30119861 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
30119907 AGAGCACACT
Statistics
Matches: 206, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
45 4 0.02
46 164 0.80
48 1 0.00
50 33 0.16
51 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:30123137 original size:11 final size:11
Alignment explanation
Indices: 30123123--30123167 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
30123113 AGATAAATAT
30123123 TATTTTATTAA
1 TATTTTATTAA
*
30123134 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
30123147 TATTTTATTAT
1 TATTTTATTAA
30123158 TATTTTATTA
1 TATTTTATTA
30123168 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:30125023 original size:46 final size:46
Alignment explanation
Indices: 30124971--30125385 Score: 514
Period size: 46 Copynumber: 9.0 Consensus size: 46
30124961 GTGTGCTTTC
*
30124971 TGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGAAATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
30125017 TGAAATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACA
1 TGAAATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
30125063 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGAAATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
30125109 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGAAATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** * * * * *
30125155 T-AACGGGAAATGAATAAAACCATGGTTG-AAGATACCATGGTAGCG
1 TGAA-ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
30125200 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGAAATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
30125246 T-AACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGAA-ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
30125292 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGAAATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
30125338 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGAAATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
30125384 TG
1 TG
30125386 TCAAAGATAA
Statistics
Matches: 335, Mismatches: 28, Indels: 12
0.89 0.07 0.03
Matches are distributed among these distances:
45 39 0.12
46 295 0.88
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGAAATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:30125312 original size:183 final size:184
Alignment explanation
Indices: 30124989--30125385 Score: 535
Period size: 183 Copynumber: 2.2 Consensus size: 184
30124979 AATGTGTAAG
** *
30124989 ACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGTGTAAGACTATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGAATAAGACCATGGTTGAAAGATACC
* * * ** *
30125054 ATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
66 ATGGCAACATAACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* **
30125119 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAACGGGAAATGAATAAA
131 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACGGGAAATGAATAAA
* * * *
30125173 ACCATGGTTG-AAGATACCATGGTAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGAATAAGACCATGGTTGAAAGATACC
* *
30125237 ATGGCAACGTAACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
66 ATGGCAACATAACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* * * * * *
30125302 AGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACAGAAAATGAGTAAG
131 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACGGGAAATGAATAAA
* * * *
30125356 ACCATAGTTGAAAGACACTATGGCATCATG
1 ACCATGGTTGAAAGATACCATGGCAACATG
30125386 TCAAAGATAA
Statistics
Matches: 182, Mismatches: 30, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
183 158 0.87
184 24 0.13
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (184 bp):
ACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGAATAAGACCATGGTTGAAAGATACC
ATGGCAACATAACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
AGAATAAGACCATGGTTGAAAGATACCATGGCAACATAACGGGAAATGAATAAA
Found at i:30125687 original size:16 final size:17
Alignment explanation
Indices: 30125666--30125698 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30125656 ATGATGGAGC
30125666 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
30125682 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
30125699 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:30126885 original size:12 final size:12
Alignment explanation
Indices: 30126870--30126896 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30126860 ATCATCCTCT
30126870 TCATCAGATTCA
1 TCATCAGATTCA
30126882 TCATCAGATTCA
1 TCATCAGATTCA
30126894 TCA
1 TCA
30126897 CTCGATCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:30128689 original size:9 final size:9
Alignment explanation
Indices: 30128611--30128741 Score: 74
Period size: 9 Copynumber: 14.7 Consensus size: 9
30128601 TAAGTATAAT
*
30128611 TAAGTTATA
1 TAAGTTATG
30128620 TAAGTTATG
1 TAAGTTATG
30128629 TAAGTTATG
1 TAAGTTATG
* * *
30128638 ATATGATATA
1 -TAAGTTATG
*
30128648 T-ATTTATG
1 TAAGTTATG
30128656 T-A-TTATG
1 TAAGTTATG
*
30128663 TAAGTTATA
1 TAAGTTATG
*
30128672 TAAATTATG
1 TAAGTTATG
30128681 TAAGTTATG
1 TAAGTTATG
* * *
30128690 AAATTTGATCTT
1 TAAGTT-A--TG
*
30128702 TAAATTATG
1 TAAGTTATG
30128711 TAAGTTATG
1 TAAGTTATG
30128720 T-A-TTATG
1 TAAGTTATG
*
30128727 TAAATTATG
1 TAAGTTATG
*
30128736 TGAGTT
1 TAAGTT
30128742 GCTGGTGAAC
Statistics
Matches: 93, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
7 12 0.13
8 8 0.09
9 60 0.65
10 7 0.08
11 1 0.01
12 5 0.05
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:30128726 original size:16 final size:16
Alignment explanation
Indices: 30128705--30128736 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30128695 TGATCTTTAA
*
30128705 ATTATGTAAGTTATGT
1 ATTATGTAAATTATGT
30128721 ATTATGTAAATTATGT
1 ATTATGTAAATTATGT
30128737 GAGTTGCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (16 bp):
ATTATGTAAATTATGT
Found at i:30131539 original size:15 final size:15
Alignment explanation
Indices: 30131516--30131547 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30131506 AAATAATAAT
30131516 TTATATATATTTATC
1 TTATATATATTTATC
*
30131531 TTATTTATATTTATC
1 TTATATATATTTATC
30131546 TT
1 TT
30131548 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:30132145 original size:16 final size:17
Alignment explanation
Indices: 30132113--30132148 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
30132103 ATCCCTAAAA
30132113 CAATAAACCCCAAAACC
1 CAATAAACCCCAAAACC
*
30132130 CAATAAA-CCCATAACC
1 CAATAAACCCCAAAACC
30132146 CAA
1 CAA
30132149 AATAACAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.53, C:0.39, G:0.00, T:0.08
Consensus pattern (17 bp):
CAATAAACCCCAAAACC
Found at i:30138007 original size:13 final size:13
Alignment explanation
Indices: 30137989--30138027 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
30137979 TTGGATGCCA
30137989 AGAAAATCAATAG
1 AGAAAATCAATAG
*
30138002 AGAAAATGAA-AG
1 AGAAAATCAATAG
30138014 AGATAAATCAATAG
1 AGA-AAATCAATAG
30138028 TATCTCCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 5 0.23
13 15 0.68
14 2 0.09
ACGTcount: A:0.62, C:0.05, G:0.18, T:0.15
Consensus pattern (13 bp):
AGAAAATCAATAG
Found at i:30142544 original size:47 final size:47
Alignment explanation
Indices: 30142493--30142583 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
30142483 CCTAAGAATA
* *
30142493 CTATCTATACTTAGTATTGGACAACGAAGAAAATCAGGGAGATCAAT
1 CTATCTATACTTAGTATCGGACAACGAAGAAAATCAGGAAGATCAAT
*
30142540 CTATCTATACTTAGTATCGGACAATGAAGAAAATCAGGAAGATC
1 CTATCTATACTTAGTATCGGACAACGAAGAAAATCAGGAAGATC
30142584 GAATTGCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (47 bp):
CTATCTATACTTAGTATCGGACAACGAAGAAAATCAGGAAGATCAAT
Found at i:30143214 original size:2 final size:2
Alignment explanation
Indices: 30143207--30143232 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30143197 TAATTTAATT
30143207 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
30143233 AAATGCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30147402 original size:23 final size:23
Alignment explanation
Indices: 30147320--30147406 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
30147310 CCTGATCAGT
*
30147320 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
30147342 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
30147362 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
30147385 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
30147407 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:30148950 original size:15 final size:18
Alignment explanation
Indices: 30148915--30148966 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
30148905 CTCGAATGCT
*
30148915 TTCTGTTCTCTTTTCTATTCT
1 TTCTGTT-TCTTTTCT-TT-A
*
30148936 TTTTGTTTCTTTTCTTTA
1 TTCTGTTTCTTTTCTTTA
30148954 TTCTGTTTCTTTT
1 TTCTGTTTCTTTT
30148967 ATTCACTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.43
19 2 0.07
20 8 0.29
21 6 0.21
ACGTcount: A:0.04, C:0.17, G:0.06, T:0.73
Consensus pattern (18 bp):
TTCTGTTTCTTTTCTTTA
Found at i:30148957 original size:27 final size:28
Alignment explanation
Indices: 30148914--30148966 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
30148904 GCTCGAATGC
30148914 TTTCTGTTCTCTTTTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTTCTGATTCTTTTTG
* *
30148941 TTTCTTTTCT-TTATTCTGTTTCTTTT
1 TTTCTGTTCTCTT-TTCTGATTCTTTT
30148967 ATTCACTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 2 0.09
27 13 0.59
28 7 0.32
ACGTcount: A:0.04, C:0.17, G:0.06, T:0.74
Consensus pattern (28 bp):
TTTCTGTTCTCTTTTCTGATTCTTTTTG
Found at i:30149654 original size:11 final size:11
Alignment explanation
Indices: 30149617--30149646 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
30149607 AAAAAAAATG
30149617 TTTTTTTTGCT
1 TTTTTTTTGCT
30149628 TTTTTTTTGCT
1 TTTTTTTTGCT
30149639 TTTTTTTT
1 TTTTTTTT
30149647 ACTATTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (11 bp):
TTTTTTTTGCT
Found at i:30151126 original size:13 final size:13
Alignment explanation
Indices: 30151108--30151137 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30151098 TTTAAATGTG
*
30151108 AAATGAATATATT
1 AAATGAATATATA
30151121 AAATGAATATATA
1 AAATGAATATATA
30151134 AAAT
1 AAAT
30151138 CTAACTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
AAATGAATATATA
Found at i:30151795 original size:26 final size:28
Alignment explanation
Indices: 30151727--30151799 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 28
30151717 GTTACAAATT
* *
30151727 AGACTTATTTGATTCTTTTTTAATAGTATA
1 AGACTAATTTGA-TC-TATTTAATAGTATA
*
30151757 AGAACTAAATTGATCTATTTAATA-T-TA
1 AG-ACTAATTTGATCTATTTAATAGTATA
30151784 AGACTAATTTGATCTA
1 AGACTAATTTGATCTA
30151800 ATTTCTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 13 0.34
27 4 0.11
28 1 0.03
29 8 0.21
30 4 0.11
31 8 0.21
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (28 bp):
AGACTAATTTGATCTATTTAATAGTATA
Found at i:30153076 original size:57 final size:57
Alignment explanation
Indices: 30152988--30153101 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
30152978 ACTACAGTAA
30152988 GGGAATGCGATGCTATTGATTATTATTAAGATTTCTCACTGGGATGGTTTATATGGG
1 GGGAATGCGATGCTATTGATTATTATTAAGATTTCTCACTGGGATGGTTTATATGGG
30153045 GGGAATGCGATGCTATTGATTATTATTAAGATTTCTCACTGGGATGGTTTATATGGG
1 GGGAATGCGATGCTATTGATTATTATTAAGATTTCTCACTGGGATGGTTTATATGGG
30153102 TTGTTCTTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.39
Consensus pattern (57 bp):
GGGAATGCGATGCTATTGATTATTATTAAGATTTCTCACTGGGATGGTTTATATGGG
Found at i:30154253 original size:2 final size:2
Alignment explanation
Indices: 30154246--30154292 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
30154236 CCTCCCTTTG
* *
30154246 CT CT CT CT TT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
30154288 CT CT C
1 CT CT C
30154293 CCCATGTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:30154330 original size:4 final size:4
Alignment explanation
Indices: 30154315--30154344 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
30154305 TTTCTTTGTG
*
30154315 TGTA TATA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
30154345 CATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:30155806 original size:2 final size:2
Alignment explanation
Indices: 30155799--30155832 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
30155789 ACAGGATTTG
30155799 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
30155833 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:30158996 original size:11 final size:11
Alignment explanation
Indices: 30158982--30159031 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
30158972 TTTCAATATT
30158982 CTCTCAAATTC
1 CTCTCAAATTC
30158993 CTCTCAAA-T-
1 CTCTCAAATTC
*
30159002 CTCTCAAATTT
1 CTCTCAAATTC
* *
30159013 CTCTTAAATAC
1 CTCTCAAATTC
30159024 CTCTCAAA
1 CTCTCAAA
30159032 ACTCTCGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 23 0.70
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:30159006 original size:20 final size:20
Alignment explanation
Indices: 30158981--30159031 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
30158971 CTTTCAATAT
30158981 TCTCTCAAATTCCTCTCAAA
1 TCTCTCAAATTCCTCTCAAA
* *
30159001 TCTCTCAAATTTCTCTTAAA
1 TCTCTCAAATTCCTCTCAAA
30159021 TACCTCTCAAA
1 T--CTCTCAAA
30159032 ACTCTCGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 19 0.70
22 8 0.30
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (20 bp):
TCTCTCAAATTCCTCTCAAA
Found at i:30160738 original size:30 final size:30
Alignment explanation
Indices: 30160686--30160751 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
30160676 CGACGACGCA
* *
30160686 GGCCCATCAATAGCACCCACACAATCACCC
1 GGCCCAGCAACAGCACCCACACAATCACCC
* * * *
30160716 GGCCCAGCAACAGGACCTACACAGTCACCG
1 GGCCCAGCAACAGCACCCACACAATCACCC
30160746 GGCCCA
1 GGCCCA
30160752 ACAGTTCAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.44, G:0.18, T:0.08
Consensus pattern (30 bp):
GGCCCAGCAACAGCACCCACACAATCACCC
Found at i:30160832 original size:18 final size:18
Alignment explanation
Indices: 30160806--30160842 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30160796 GCCAGGTACT
* *
30160806 TATCCTAGCCCTTTTATG
1 TATCATAGCCCTTATATG
30160824 TATCATAGCCCTTATATG
1 TATCATAGCCCTTATATG
30160842 T
1 T
30160843 TTCCTTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (18 bp):
TATCATAGCCCTTATATG
Found at i:30161436 original size:116 final size:116
Alignment explanation
Indices: 30161232--30161498 Score: 489
Period size: 116 Copynumber: 2.3 Consensus size: 116
30161222 TATTTGTACA
* *
30161232 AACATTTTGAATCTTTATATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * *
30161297 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
30161348 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
30161413 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
30161464 AACATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
30161499 AAAATATAAA
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 146 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
Found at i:30161461 original size:54 final size:54
Alignment explanation
Indices: 30161281--30161462 Score: 172
Period size: 54 Copynumber: 3.2 Consensus size: 54
30161271 TAAAAGGTTG
* *
30161281 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
* * * * * *
30161335 TTTTAAATAAGGCAACATTTTGAATATT--TTTATATTATTTCATGTAATTAGAT-AAAAGGTTG
1 TTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATGAAAA--TTA
30161397 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
30161451 TTTTAAATAAAG
1 TTTTAAATAAAG
30161463 CAACATTTTG
Statistics
Matches: 101, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
54 25 0.25
55 8 0.08
56 12 0.12
57 5 0.05
58 14 0.14
59 5 0.05
60 11 0.11
61 8 0.08
62 13 0.13
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (54 bp):
TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
Found at i:30164756 original size:126 final size:126
Alignment explanation
Indices: 30164529--30165055 Score: 833
Period size: 126 Copynumber: 4.2 Consensus size: 126
30164519 TTCAGAAATC
*
30164529 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGTTGAAAATGCATCCTACT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTACT
*** * * *
30164594 TGAAGCGTTTTTGACACTATTTATGCAGACATGTCTTCTCAAAATTATTTTTTTAGAGACC
66 TGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* * *
30164655 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAATGCATCCTACT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTACT
*
30164720 TGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
66 TGAAGCGTTTTTGA-CACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* * *
30164781 ACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTACT
* * * *
30164846 TGAAGCGTTTTTTACACTATTTGCATAGACACATCTTCTCAAAATTATTTTTTCAGATACT
66 TGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* * *
30164907 ACTGTAGCAAAAGAGCGTCCGCGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTACT
*
30164972 TGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAATTTA-TTTTTCAGAGACT
66 TGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
30165032 ACTGTAGCAAAAGAGCGTCCACGT
1 ACTGTAGCAAAAGAGCGTCCACGT
30165056 AGAAGCTTTT
Statistics
Matches: 372, Mismatches: 27, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
125 36 0.10
126 335 0.90
127 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTACT
TGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
Found at i:30165295 original size:96 final size:96
Alignment explanation
Indices: 30165166--30165340 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
30165156 CTTAAAATCC
* * ** *
30165166 TAATCTAATTTTTTTTAAATTTATAATTAATTTACTCAAGTAAC-CTTAAACCCTAATTTATTTG
1 TAATCTAA-TTTTTTTAAAATTATAATTAATTTAATCAACAAACAC-TAAACCCTAATTTATTTA
30165230 ATTTTTTCCTTAAAAACCATAAACACTAAACCA
64 ATTTTTTCCTTAAAAACCATAAACACTAAACCA
* *
30165263 TAATCTAA-TTTTTTAAAATTAGTAATTAATTTAATTAACAAACACTAAACCTTAATTTATTTAA
1 TAATCTAATTTTTTTAAAATTA-TAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTAA
30165327 TTTTTTCCTTAAAA
65 TTTTTTCCTTAAAA
30165341 CCCTAAAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 12 0.17
96 48 0.70
97 9 0.13
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.44
Consensus pattern (96 bp):
TAATCTAATTTTTTTAAAATTATAATTAATTTAATCAACAAACACTAAACCCTAATTTATTTAAT
TTTTTCCTTAAAAACCATAAACACTAAACCA
Found at i:30169581 original size:9 final size:9
Alignment explanation
Indices: 30169567--30169599 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
30169557 TCTTATATTT
30169567 TTTTTTTAC
1 TTTTTTTAC
30169576 TTTTTTTAAC
1 TTTTTTT-AC
30169586 -TTTTTTAC
1 TTTTTTTAC
30169594 TTTTTT
1 TTTTTT
30169600 CTTATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:30169682 original size:36 final size:36
Alignment explanation
Indices: 30169615--30169688 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
30169605 ATTTTGTCTC
*
30169615 TTTCTTAAATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAAATTTTTTTCTTATTTAAG-TTTATATTAT
30169652 TTTCTT-AATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAAATTT-TTTT-CTTATTTAAGTTTATATTAT
30169688 T
1 T
30169689 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 16 0.47
37 10 0.29
38 8 0.24
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.69
Consensus pattern (36 bp):
TTTCTTAAATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:30169693 original size:18 final size:17
Alignment explanation
Indices: 30169642--30169689 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
30169632 TTTTTTAAGT
*
30169642 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
30169660 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
30169678 TTTATATTATTA
1 TTTATATTATTA
30169690 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:30169765 original size:22 final size:23
Alignment explanation
Indices: 30169678--30169765 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 23
30169668 ACTTATTTAA
* *
30169678 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAAAT
* * * *
30169701 TTTGTAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAA-AT
*
30169724 TTTATAATATT-TTTTT--AAAT
1 TTTATATTATTATTTTTAAAAAT
30169744 TTTA-ATTATTATTTTTAAAAAT
1 TTTATATTATTATTTTTAAAAAT
30169766 ATTTTAACTT
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
19 5 0.10
20 10 0.20
21 2 0.04
22 13 0.26
23 19 0.38
24 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAAAT
Found at i:30170546 original size:10 final size:9
Alignment explanation
Indices: 30170528--30170616 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 9
30170518 TAAAATTTAA
30170528 AAAATATTT
1 AAAATATTT
30170537 AAAATCATTT
1 AAAAT-ATTT
*
30170547 AAAATATTAA
1 AAAATATT-T
30170557 AAAATATTT
1 AAAATATTT
*
30170566 TAAATCATTT
1 AAAAT-ATTT
* *
30170576 TAAATGTTTT
1 AAAAT-ATTT
* *
30170586 ATAATATTA
1 AAAATATTT
30170595 AAAATATATT
1 AAAATAT-TT
*
30170605 -TAATATTT
1 AAAATATTT
30170613 AAAA
1 AAAA
30170617 AATAATTTGA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 2 0.03
9 27 0.44
10 33 0.53
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (9 bp):
AAAATATTT
Found at i:30170552 original size:19 final size:18
Alignment explanation
Indices: 30170528--30170616 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 18
30170518 TAAAATTTAA
30170528 AAAATATTTAAAATCATTT
1 AAAATATTTAAAAT-ATTT
*
30170547 AAAATATTAAAAAATATTT
1 AAAATATT-TAAAATATTT
* * *
30170566 TAAATCATTTTAAATGTTTT
1 AAAAT-ATTTAAAAT-ATTT
* *
30170586 ATAATATTAAAAATATATT
1 AAAATATTTAAAATAT-TT
*
30170605 -TAATATTTAAAA
1 AAAATATTTAAAA
30170617 AATAATTTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 12 0.22
19 29 0.53
20 14 0.25
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (18 bp):
AAAATATTTAAAATATTT
Found at i:30170556 original size:29 final size:28
Alignment explanation
Indices: 30170518--30170630 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
30170508 AAATTCTATG
30170518 TAAAATTTAAAAAATATTTAAAATCATT
1 TAAAATTTAAAAAATATTTAAAATCATT
*
30170546 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAAT-TTAAAAAATATTTAAAATCATT
* ** * * *
30170575 TTAAATGTTTTATAATATTAAAAATATATT
1 TAAAAT-TTAAAAAATATTTAAAAT-CATT
*
30170605 TAATATTTAAAAAATAATTTGAAAAT
1 TAAAATTTAAAAAAT-ATTT-AAAAT
30170631 ATATTTTTAA
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 6 0.09
29 45 0.68
30 10 0.15
31 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAATTTAAAAAATATTTAAAATCATT
Found at i:30170633 original size:31 final size:34
Alignment explanation
Indices: 30170586--30170674 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 34
30170576 TAAATGTTTT
30170586 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
30170618 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
*
30170652 A-ATATATTATAAAACAT-TTTTAA
1 ATA-ATATTA-AAAATATATTTTAA
30170675 AAAATACATT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
31 10 0.21
32 5 0.10
33 12 0.25
34 13 0.27
35 2 0.04
36 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:30170665 original size:13 final size:13
Alignment explanation
Indices: 30170639--30170680 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
30170629 ATATATTTTT
30170639 AATATTTATAAAA
1 AATATTTATAAAA
30170652 AATATATTATAAAA
1 AATAT-TTATAAAA
*
30170666 CAT-TTT-TAAAA
1 AATATTTATAAAA
30170677 AATA
1 AATA
30170681 CATTTCAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTTATAAAA
Found at i:30170762 original size:28 final size:28
Alignment explanation
Indices: 30170720--30170786 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
30170710 AAATAAGGAC
30170720 TTAAAAAAG-AAAAAGAAAGTCAAAACT
1 TTAAAAAAGAAAAAAGAAAGTCAAAACT
30170747 TTAAAAAAGAAAAAAGAAAGTCAAAACT
1 TTAAAAAAGAAAAAAGAAAGTCAAAACT
30170775 TTAAAAAA-AAAA
1 TTAAAAAAGAAAA
30170787 GGCTGAAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 13 0.33
28 26 0.67
ACGTcount: A:0.70, C:0.06, G:0.09, T:0.15
Consensus pattern (28 bp):
TTAAAAAAGAAAAAAGAAAGTCAAAACT
Found at i:30174178 original size:29 final size:30
Alignment explanation
Indices: 30174127--30174246 Score: 183
Period size: 29 Copynumber: 4.1 Consensus size: 30
30174117 GGTCAAATAG
* *
30174127 ACTCGAACCGCCTATATCC-GGTGATATGA
1 ACTCGAACCACCTATGTCCGGGTGATATGA
30174156 ACTCGAACCACC-ATGTCCGGGTGATAT-A
1 ACTCGAACCACCTATGTCCGGGTGATATGA
*
30174184 ACTCGAACCACCCATGTCCGGGTGATATGA
1 ACTCGAACCACCTATGTCCGGGTGATATGA
*
30174214 ACTCGAACCACCTATGTCCGGGTTATATGA
1 ACTCGAACCACCTATGTCCGGGTGATATGA
30174244 ACT
1 ACT
30174247 ACTCTGGGAC
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
28 18 0.21
29 34 0.40
30 32 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (30 bp):
ACTCGAACCACCTATGTCCGGGTGATATGA
Found at i:30177254 original size:18 final size:18
Alignment explanation
Indices: 30177234--30177270 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
30177224 ATATATTTAA
30177234 TATATTT-T-TTTAAATT
1 TATATTTATATTTAAATT
30177250 TATATTTATATTTAAATT
1 TATATTTATATTTAAATT
30177268 TAT
1 TAT
30177271 TAATAGTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATTTATATTTAAATT
Found at i:30177389 original size:21 final size:22
Alignment explanation
Indices: 30177365--30177410 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
30177355 TCTAATGTTA
30177365 AAAAAATT-AAAAATAATATT-T
1 AAAAAATTAAAAAAT-ATATTAT
*
30177386 -AAAATTTAAAAAATATATTAT
1 AAAAAATTAAAAAATATATTAT
30177407 AAAA
1 AAAA
30177411 TATTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
20 11 0.52
21 7 0.33
22 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAATTAAAAAATATATTAT
Found at i:30177397 original size:28 final size:29
Alignment explanation
Indices: 30177326--30177399 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 29
30177316 ATATTTTTTA
*
30177326 ATTTAAAATTT-AAAATTTAAATACATAT
1 ATTTAAAATTTAAAAAATTAAATACATAT
* ** *
30177354 ATCTAATGTTAAAAAAATTAAA-A-ATAAT
1 ATTTAAAATTTAAAAAATTAAATACAT-AT
30177382 ATTTAAAATTTAAAAAAT
1 ATTTAAAATTTAAAAAAT
30177400 ATATTATAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
27 2 0.06
28 24 0.69
29 9 0.26
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (29 bp):
ATTTAAAATTTAAAAAATTAAATACATAT
Found at i:30177443 original size:23 final size:24
Alignment explanation
Indices: 30177390--30177443 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
30177380 ATATTTAAAA
* * *
30177390 TTTAAAAAATATATTATAAAATAT
1 TTTAAAATATACATTACAAAATAT
30177414 TTT-AAATATACATTACAAAAT-T
1 TTTAAAATATACATTACAAAATAT
30177436 TTTAAAAT
1 TTTAAAAT
30177444 TAATAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 19 0.73
24 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAAAATATACATTACAAAATAT
Found at i:30177458 original size:5 final size:5
Alignment explanation
Indices: 30177438--30177494 Score: 55
Period size: 5 Copynumber: 11.2 Consensus size: 5
30177428 ACAAAATTTT
*
30177438 TAAAA TTAATAA TAAAA T-AAA T-AAA CAAAA TAAAA TAAAA TAAGAA
1 TAAAA -TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA
*
30177484 AAAAA TAAAA T
1 TAAAA TAAAA T
30177495 TTCAAAAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
4 7 0.16
5 25 0.57
6 10 0.23
7 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:30177469 original size:21 final size:21
Alignment explanation
Indices: 30177445--30177494 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
30177435 TTTTAAAATT
*
30177445 AATAATAAAATAAAT-A-AAC
1 AATAATAAAATAAATAAGAAA
30177464 AA-AATAAAATAAAATAAGAAA
1 AATAATAAAAT-AAATAAGAAA
30177485 AA-AATAAAAT
1 AATAATAAAAT
30177495 TTCAAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 8 0.30
19 6 0.22
20 1 0.04
21 12 0.44
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (21 bp):
AATAATAAAATAAATAAGAAA
Found at i:30177485 original size:18 final size:18
Alignment explanation
Indices: 30177448--30177494 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
30177438 TAAAATTAAT
30177448 AATAAAAT-AAATAAACAA
1 AATAAAATAAAATAAAC-A
*
30177466 AATAAAATAAAAT-AAGA
1 AATAAAATAAAATAAACA
30177483 AA-AAAATAAAAT
1 AATAAAATAAAAT
30177495 TTCAAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 10 0.37
17 3 0.11
18 10 0.37
19 4 0.15
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (18 bp):
AATAAAATAAAATAAACA
Found at i:30177530 original size:36 final size:36
Alignment explanation
Indices: 30177464--30177539 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
30177454 ATAAATAAAC
*
30177464 AAAATAAAATAAAATAAGAAAAAAATAAAATTTCAA
1 AAAATAAAATAAAATAAGAAAAAAACAAAATTTCAA
* *
30177500 AAAAGTAAAA-AAAA-AAGGAAAAAGACAAAATTTTAA
1 AAAA-TAAAATAAAATAA-GAAAAAAACAAAATTTCAA
30177536 AAAA
1 AAAA
30177540 ATATTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 2 0.06
36 28 0.80
37 5 0.14
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.16
Consensus pattern (36 bp):
AAAATAAAATAAAATAAGAAAAAAACAAAATTTCAA
Found at i:30177571 original size:27 final size:28
Alignment explanation
Indices: 30177541--30177604 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 28
30177531 TTTAAAAAAA
* * *
30177541 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAAAATTATAATTTCTTAAATG
*
30177568 TA-TTAAAAAATTATAATTTTTTAAATG
1 TATTTAAAAAATTATAATTTCTTAAATG
30177595 TATTTAAAAA
1 TATTTAAAAA
30177605 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 20 0.65
27 4 0.13
28 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
TATTTAAAAAATTATAATTTCTTAAATG
Found at i:30177612 original size:26 final size:26
Alignment explanation
Indices: 30177541--30177606 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
30177531 TTTAAAAAAA
* *
30177541 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAA-ATTATAATTTCTTAAAT
* *
30177568 TATTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAAATTATAATTTCTTAAAT
30177594 GTATTTAAAAATT
1 -TATTTAAAAATT
30177607 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TATTTAAAAATTATAATTTCTTAAAT
Found at i:30177792 original size:28 final size:28
Alignment explanation
Indices: 30177760--30177830 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
30177750 AAAGAAAAAA
30177760 TATATTTAATATTTATAAAA-TAATATT
1 TATATTTAATATTTATAAAATTAATATT
* *
30177787 TAATATATATATATTT-TAAAATTTATATT
1 T-ATATTTA-ATATTTATAAAATTAATATT
30177816 TATATTTAA-ATTTAT
1 TATATTTAATATTTAT
30177831 TAATAGTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
26 4 0.11
27 3 0.08
28 17 0.46
29 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TATATTTAATATTTATAAAATTAATATT
Found at i:30177799 original size:23 final size:20
Alignment explanation
Indices: 30177756--30177797 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
30177746 AAAAAAAGAA
30177756 AAAATATATTTAATATTTAT
1 AAAATATATTTAATATTTAT
*
30177776 AAAATAATATTTAATATATAT
1 AAAAT-ATATTTAATATTTAT
30177797 A
1 A
30177798 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATATATTTAATATTTAT
Found at i:30177826 original size:18 final size:18
Alignment explanation
Indices: 30177759--30177830 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
30177749 AAAAGAAAAA
*
30177759 ATATATTTAATATTTATAAA
1 ATATATTTAA-ATTTAT-AT
*
30177779 ATAATATTT-AATATATAT
1 AT-ATATTTAAATTTATAT
30177797 ATAT-TTTAAAATTTATAT
1 ATATATTT-AAATTTATAT
*
30177815 TTATATTTAAATTTAT
1 ATATATTTAAATTTAT
30177831 TAATAGTCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
16 3 0.07
17 2 0.05
18 22 0.50
19 8 0.18
20 3 0.07
21 6 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATTTAAATTTATAT
Found at i:30178111 original size:22 final size:23
Alignment explanation
Indices: 30178086--30178177 Score: 77
Period size: 23 Copynumber: 4.1 Consensus size: 23
30178076 AAGTTAAAAA
30178086 AAAATTTTTAAAAATAATAAT-T
1 AAAATTTTTAAAAATAATAATAT
*
30178108 AAAA-TTTTAAAAA-AATATTAT
1 AAAATTTTTAAAAATAATAATAT
* * *
30178129 AAAACATTTTAAATAT-ATATTACT
1 AAAA-TTTTTAAAAATAATAATA-T
* *
30178153 -AATTTTTTAAAATTAATAATAT
1 AAAATTTTTAAAAATAATAATAT
30178175 AAA
1 AAA
30178178 TTAAATAAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
20 5 0.09
21 14 0.25
22 13 0.23
23 23 0.41
24 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATTTTTAAAAATAATAATAT
Found at i:30178212 original size:18 final size:18
Alignment explanation
Indices: 30178162--30178213 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
30178152 TAATTTTTTA
*
30178162 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
30178180 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
30178198 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
30178214 ACTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:30178270 original size:9 final size:9
Alignment explanation
Indices: 30178249--30178290 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
30178239 AAAATATAAG
30178249 AAAAAAAGT
1 AAAAAAAGT
*
30178258 -AAAAAGGT
1 AAAAAAAGT
30178266 AAAAAAAGT
1 AAAAAAAGT
*
30178275 AAGAAAAGT
1 AAAAAAAGT
30178284 AAAAAAA
1 AAAAAAA
30178291 TATATCAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:30178271 original size:17 final size:18
Alignment explanation
Indices: 30178249--30178290 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
30178239 AAAATATAAG
*
30178249 AAAAAAAGTAA-AAAGGT
1 AAAAAAAGTAAGAAAAGT
30178266 AAAAAAAGTAAGAAAAGT
1 AAAAAAAGTAAGAAAAGT
30178284 AAAAAAA
1 AAAAAAA
30178291 TATATCAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (18 bp):
AAAAAAAGTAAGAAAAGT
Found at i:30180689 original size:27 final size:28
Alignment explanation
Indices: 30180659--30180720 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 28
30180649 TATAAAAGGT
* *
30180659 TTAAATTGA-TTTATAATTTTTAAAGAA
1 TTAAATTAATTTTATAATTTTTAAAAAA
*
30180686 TTAAATTAATTTTTTATTATTTTTAAAAAA
1 TTAAATTAA--TTTTATAATTTTTAAAAAA
30180716 TTAAA
1 TTAAA
30180721 GTAAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 8 0.28
30 21 0.72
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (28 bp):
TTAAATTAATTTTATAATTTTTAAAAAA
Found at i:30180689 original size:109 final size:110
Alignment explanation
Indices: 30180566--30180775 Score: 298
Period size: 110 Copynumber: 1.9 Consensus size: 110
30180556 ATCTTCATAG
* *
30180566 TTTTTAAATGATTAAATAAAATTTTTATCATTTTT-AAAAGCTAAAGTATAATTTTACCATTACT
1 TTTTTAAATGATTAAATAAAATTTTTATCATTTTTAAAAAACTAAAGTAAAATTTTACCATTACT
* *
30180630 AATTTAAAGTTTTATAAATTATAAAAGGTTTAAATTGATTTATAA
66 AAATTAAAATTTTATAAATTATAAAAGGTTTAAATTGATTTATAA
* * * * **
30180675 TTTTTAAA-GAATTAAATTAATTTTTTATTATTTTTAAAAAATTAAAGTAAAATTTTATTATTAC
1 TTTTTAAATG-ATTAAATAAAATTTTTATCATTTTTAAAAAACTAAAGTAAAATTTTACCATTAC
*
30180739 TAAATTAAAATTTTATAAATTGTAAAAGGTTTAAATT
65 TAAATTAAAATTTTATAAATTATAAAAGGTTTAAATT
30180776 ACAATTTTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 1 0.01
109 30 0.34
110 57 0.65
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (110 bp):
TTTTTAAATGATTAAATAAAATTTTTATCATTTTTAAAAAACTAAAGTAAAATTTTACCATTACT
AAATTAAAATTTTATAAATTATAAAAGGTTTAAATTGATTTATAA
Found at i:30180708 original size:30 final size:30
Alignment explanation
Indices: 30180668--30180736 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
30180658 TTTAAATTGA
* * * **
30180668 TTTATAATTTTTAAAGAATTAAATTAATTT
1 TTTATTATTTTTAAAAAATTAAAGTAAAAT
30180698 TTTATTATTTTTAAAAAATTAAAGTAAAAT
1 TTTATTATTTTTAAAAAATTAAAGTAAAAT
30180728 TTTATTATT
1 TTTATTATT
30180737 ACTAAATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (30 bp):
TTTATTATTTTTAAAAAATTAAAGTAAAAT
Found at i:30181152 original size:13 final size:13
Alignment explanation
Indices: 30181134--30181164 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30181124 GTATAAATGT
*
30181134 ATATTGAATATAA
1 ATATTGAATAAAA
30181147 ATATTGAATAAAA
1 ATATTGAATAAAA
30181160 ATATT
1 ATATT
30181165 TTAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (13 bp):
ATATTGAATAAAA
Found at i:30190156 original size:21 final size:21
Alignment explanation
Indices: 30190113--30190156 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
30190103 CCCTGAATCC
*
30190113 AAACCCAAACCTCAAACCCTA
1 AAACCCAAACCTCAAACCATA
* *
30190134 AAACTCAAACCTCAAATCATA
1 AAACCCAAACCTCAAACCATA
30190155 AA
1 AA
30190157 CCCTAAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.14
Consensus pattern (21 bp):
AAACCCAAACCTCAAACCATA
Found at i:30190157 original size:14 final size:14
Alignment explanation
Indices: 30190126--30190171 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
30190116 CCCAAACCTC
*
30190126 AAACCCTAAAAC-T
1 AAACCCTAAATCAT
30190139 CAAA-CCTCAAATCAT
1 -AAACCCT-AAATCAT
30190154 AAACCCTAAATCAT
1 AAACCCTAAATCAT
30190168 AAAC
1 AAAC
30190172 TTAGCCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.11
14 21 0.75
15 4 0.14
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCCTAAATCAT
Found at i:30191476 original size:30 final size:30
Alignment explanation
Indices: 30191440--30191501 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
30191430 TACCATTGAA
30191440 GAATAAATCTCCAACAGTTCACTTTATATC
1 GAATAAATCTCCAACAGTTCACTTTATATC
30191470 GAATAAATCTCCAACAGTTCACTTTATATC
1 GAATAAATCTCCAACAGTTCACTTTATATC
30191500 GA
1 GA
30191502 TCTTTATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (30 bp):
GAATAAATCTCCAACAGTTCACTTTATATC
Found at i:30193506 original size:3 final size:3
Alignment explanation
Indices: 30193493--30193536 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
30193483 ATATAATGAA
30193493 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
30193537 TGAAAATACA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:30194029 original size:22 final size:22
Alignment explanation
Indices: 30194004--30194047 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30193994 GAGGGAAAAA
*
30194004 AAAAGAGAGAGGAGAAGGAGAG
1 AAAAGAAAGAGGAGAAGGAGAG
* *
30194026 AAAAGAAAGGGGAGAGGGAGAG
1 AAAAGAAAGAGGAGAAGGAGAG
30194048 GGAGCTCCGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (22 bp):
AAAAGAAAGAGGAGAAGGAGAG
Found at i:30194199 original size:18 final size:18
Alignment explanation
Indices: 30194162--30194214 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
30194152 AATCTAATTT
*
30194162 TTTTTTTATTTTT-TAT-
1 TTTTATTATTTTTATATA
30194178 TTTTATTATTTTTATATA
1 TTTTATTATTTTTATATA
* * *
30194196 TTTTAGTATGTATATATA
1 TTTTATTATTTTTATATA
30194214 T
1 T
30194215 GGGAAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 12 0.39
17 3 0.10
18 16 0.52
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TTTTATTATTTTTATATA
Found at i:30194600 original size:23 final size:23
Alignment explanation
Indices: 30194553--30194624 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
30194543 TACGAGGACT
* *
30194553 GTGGCGGTATGGGG-TTGTTGCA
1 GTGGGGGTATGGGGCTTGTTGTA
30194575 GTGGGGGTATGGGGCTTGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
*
30194598 GTGGGGGTATGGGGCTGGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
30194621 GTGG
1 GTGG
30194625 TTGCAGCACA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
22 13 0.28
23 33 0.72
ACGTcount: A:0.08, C:0.06, G:0.54, T:0.32
Consensus pattern (23 bp):
GTGGGGGTATGGGGCTTGTTGTA
Found at i:30194771 original size:33 final size:34
Alignment explanation
Indices: 30194726--30194817 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 34
30194716 TTCGGGTTTA
30194726 GGGGTTAGTGGGTTTAGTGGGTCTT-GGT-TAGTT
1 GGGGTTAGTGGG-TTAGTGGGTCTTGGGTCTAGTT
* *
30194759 GGGGTTATTGGGTTAGTGGGTTTTGGGTCTAGTT
1 GGGGTTAGTGGGTTAGTGGGTCTTGGGTCTAGTT
*
30194793 GTTGGGCTTAGTGGGCTTATTGGGT
1 G--GGG-TTAGTGGG-TTAGTGGGT
30194818 TAGGGGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
32 11 0.22
33 14 0.29
34 6 0.12
36 3 0.06
37 7 0.14
38 8 0.16
ACGTcount: A:0.09, C:0.04, G:0.45, T:0.42
Consensus pattern (34 bp):
GGGGTTAGTGGGTTAGTGGGTCTTGGGTCTAGTT
Found at i:30194774 original size:18 final size:17
Alignment explanation
Indices: 30194751--30194793 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
30194741 AGTGGGTCTT
30194751 GGTTAGTTGGGGTTATTG
1 GGTTAGTTGGGGTT-TTG
30194769 GGTTAG-T-GGGTTTTG
1 GGTTAGTTGGGGTTTTG
30194784 GGTCTAGTTG
1 GGT-TAGTTG
30194794 TTGGGCTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.27
16 8 0.36
17 2 0.09
18 6 0.27
ACGTcount: A:0.09, C:0.02, G:0.44, T:0.44
Consensus pattern (17 bp):
GGTTAGTTGGGGTTTTG
Found at i:30198555 original size:26 final size:26
Alignment explanation
Indices: 30198526--30198578 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
30198516 TCAAACATGC
30198526 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
30198552 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
30198578 A
1 A
30198579 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:30200099 original size:26 final size:26
Alignment explanation
Indices: 30200061--30200170 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
30200051 CATGAAATTC
*
30200061 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
30200087 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
30200113 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
30200139 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
30200165 TTATCA
1 TTATCA
30200171 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:30203147 original size:3 final size:3
Alignment explanation
Indices: 30203139--30203164 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30203129 GGTTTAAATA
30203139 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
30203165 GATTTTATTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:30217379 original size:3 final size:3
Alignment explanation
Indices: 30217371--30217408 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30217361 AAAAGGCTTT
30217371 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
30217409 GATGGCTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:30220356 original size:23 final size:23
Alignment explanation
Indices: 30220322--30220391 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
30220312 GGATACACGA
30220322 ATTCCAACCAAACACACCAGAATG
1 ATTCC-ACCAAACACACCAGAATG
30220346 ATTCCACCAAACACACCAGAAT-
1 ATTCCACCAAACACACCAGAATG
* *
30220368 AATCCACCCAAACACACCTGAATG
1 ATTCCA-CCAAACACACCAGAATG
30220392 GCACTAAGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.12
23 32 0.76
24 5 0.12
ACGTcount: A:0.44, C:0.36, G:0.07, T:0.13
Consensus pattern (23 bp):
ATTCCACCAAACACACCAGAATG
Found at i:30223633 original size:16 final size:18
Alignment explanation
Indices: 30223602--30223634 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30223592 AAATTTAAAA
30223602 TTAAGAATTAAATATTTT
1 TTAAGAATTAAATATTTT
30223620 TTAA-AATT-AATATTT
1 TTAAGAATTAAATATTT
30223635 AATTTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (18 bp):
TTAAGAATTAAATATTTT
Found at i:30230973 original size:16 final size:16
Alignment explanation
Indices: 30230952--30230983 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30230942 AAAAGATCCT
30230952 CTAACTACAATTAAGA
1 CTAACTACAATTAAGA
*
30230968 CTAACTCCAATTAAGA
1 CTAACTACAATTAAGA
30230984 ATTTATTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (16 bp):
CTAACTACAATTAAGA
Found at i:30236473 original size:28 final size:28
Alignment explanation
Indices: 30236408--30236508 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
30236398 ATAGTGAATC
*
30236408 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
30236437 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
30236465 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
30236495 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30236509 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30238630 original size:5 final size:5
Alignment explanation
Indices: 30238622--30238672 Score: 59
Period size: 5 Copynumber: 9.8 Consensus size: 5
30238612 CTAATTTAAT
*
30238622 ATAAA ATAAAA ATAAAA ATAAA ATAAA CTAAA A-ATAA ATAAA ATAAA
1 ATAAA AT-AAA AT-AAA ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA
30238669 ATAA
1 ATAA
30238673 GATTTTCCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 1 0.02
5 28 0.68
6 12 0.29
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:30238635 original size:6 final size:6
Alignment explanation
Indices: 30238619--30238659 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
30238609 AAACTAATTT
*
30238619 AATATAA AATAAA AATAAA AAT-AA AAT-AA ACTAAA AATAAA
1 AATA-AA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
30238660 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 9 0.29
6 18 0.58
7 4 0.13
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:30238638 original size:11 final size:11
Alignment explanation
Indices: 30238622--30238672 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
30238612 CTAATTTAAT
30238622 ATAAAATAAAA
1 ATAAAATAAAA
30238633 ATAAAA-ATAAA
1 ATAAAATA-AAA
*
30238644 ATAAACTAAAA
1 ATAAAATAAAA
30238655 AT-AAAT-AAA
1 ATAAAATAAAA
30238664 ATAAAATAA
1 ATAAAATAA
30238673 GATTTTCCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
9 5 0.15
10 8 0.24
11 20 0.59
12 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:30238660 original size:15 final size:16
Alignment explanation
Indices: 30238622--30238669 Score: 71
Period size: 15 Copynumber: 3.0 Consensus size: 16
30238612 CTAATTTAAT
30238622 ATAAAATAAAAATAAAA
1 ATAAAAT-AAAATAAAA
*
30238639 ATAAAATAAACTAAAA
1 ATAAAATAAAATAAAA
30238655 AT-AAATAAAATAAAA
1 ATAAAATAAAATAAAA
30238670 TAAGATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 12 0.41
16 10 0.34
17 7 0.24
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAATAAAATAAAA
Found at i:30240118 original size:44 final size:45
Alignment explanation
Indices: 30240065--30240167 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
30240055 TGTCTTTGAC
* * *
30240065 ATGGACTTACA-GGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGG-ATCAATCCTGTCTCCAAAGCCATATTATAAT
* *
30240109 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGATCAATCCTGTCTCCAAAGCCATA-TTATAAT
30240155 ATGGACTTACATG
1 ATGGACTTACATG
30240168 ACTCATTTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 31 0.61
45 2 0.04
46 18 0.35
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (45 bp):
ATGGACTTACATGGATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:30241681 original size:21 final size:19
Alignment explanation
Indices: 30241657--30241697 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
30241647 TTTTTTCCTT
30241657 TTTTCTTTCTTTTCAGTTTTC
1 TTTTCTTTCTTTT-A-TTTTC
*
30241678 TTTTTTTTCTTTTATTTTC
1 TTTTCTTTCTTTTATTTTC
30241697 T
1 T
30241698 CTAATCCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTCTTTCTTTTATTTTC
Found at i:30243630 original size:12 final size:11
Alignment explanation
Indices: 30243611--30243641 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
30243601 TGTATAAAAC
30243611 TTATTTTATTA
1 TTATTTTATTA
30243622 TTAATTTTATTA
1 TT-ATTTTATTA
30243634 TTATTTTA
1 TTATTTTA
30243642 AAGGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:30243658 original size:30 final size:30
Alignment explanation
Indices: 30243622--30243681 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30243612 TATTTTATTA
30243622 TTAATTTTATTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* * *
30243652 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
30243682 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:30244372 original size:14 final size:13
Alignment explanation
Indices: 30244338--30244371 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
30244328 AATTTTTAAC
*
30244338 TTTT-AAAATTAT
1 TTTTGAAAAGTAT
30244350 TTTTGAAAAGTAT
1 TTTTGAAAAGTAT
30244363 TTTTGAAAA
1 TTTTGAAAA
30244372 ACACTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (13 bp):
TTTTGAAAAGTAT
Found at i:30244667 original size:24 final size:24
Alignment explanation
Indices: 30244640--30244685 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30244630 CTAATTAAAT
* *
30244640 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
30244664 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
30244686 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:30246667 original size:19 final size:19
Alignment explanation
Indices: 30246645--30246686 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
30246635 ATTTTAAAGC
30246645 TTTTCATATTTTTCTGA-AT
1 TTTTCA-ATTTTTCTGAGAT
*
30246664 TTTT-AATTTTTTTGAGAT
1 TTTTCAATTTTTCTGAGAT
30246682 TTTTC
1 TTTTC
30246687 TGAATTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 9 0.45
18 7 0.35
19 4 0.20
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTCAATTTTTCTGAGAT
Found at i:30247701 original size:10 final size:10
Alignment explanation
Indices: 30247686--30247717 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
30247676 ACAACAAAAT
30247686 TTAAACATTA
1 TTAAACATTA
*
30247696 TTAAACATAA
1 TTAAACATTA
30247706 TTAAACATTA
1 TTAAACATTA
30247716 TT
1 TT
30247718 TTTTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAAACATTA
Found at i:30247707 original size:21 final size:20
Alignment explanation
Indices: 30247678--30247717 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30247668 GATAATCAAC
30247678 AACAAAATTTAAACATTATTA
1 AACAAAA-TTAAACATTATTA
*
30247699 AACATAATTAAACATTATT
1 AACAAAATTAAACATTATT
30247718 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (20 bp):
AACAAAATTAAACATTATTA
Found at i:30263193 original size:26 final size:26
Alignment explanation
Indices: 30263164--30263356 Score: 98
Period size: 26 Copynumber: 7.6 Consensus size: 26
30263154 ATCCTTTCTC
30263164 GAGCCATATAA-CAGGAAGCTCACAAA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
* *
30263190 GAGCCATTAATCGGGAAGCTCATAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* * *
30263216 GAGCC-TT--TTAGGAAGCTTATC--C
1 GAGCCATTAATCAGGAAGCTCA-CAAA
* ** * * *
30263238 GGGTTATATAA-CGGGAAGCTCATACA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
* *
30263264 GAG--ATATAATCAGGAAGTTCACATA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
* ** *
30263289 GAACTTTTAATTAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* * *
30263315 GAGCCTTTAAACGGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
*
30263341 GTGCCATTAATCAGGA
1 GAGCCATTAATCAGGA
30263357 GCTTTAAATA
Statistics
Matches: 122, Mismatches: 34, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
22 2 0.02
23 10 0.08
24 7 0.06
25 26 0.21
26 76 0.62
27 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:30267909 original size:30 final size:30
Alignment explanation
Indices: 30267875--30267934 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
30267865 ACTTAACAAG
*
30267875 CAAATACCTTTAAAATAATAATAAAATTAA
1 CAAATACCTTTAAAATAATAACAAAATTAA
*
30267905 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTTTAAAATAATAACAAAATTAA
30267935 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACCTTTAAAATAATAACAAAATTAA
Found at i:30272104 original size:19 final size:19
Alignment explanation
Indices: 30272073--30272130 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 19
30272063 TGTAAAAAAT
*
30272073 TTTATGAA-CTTTTTATAA
1 TTTATGAATTTTTTTATAA
* *
30272091 TTTAT-AATTTTTTTTTAC
1 TTTATGAATTTTTTTATAA
*
30272109 TTTTTGAATTTTTTTATAA
1 TTTATGAATTTTTTTATAA
30272128 TTT
1 TTT
30272131 TTAAATTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 2 0.06
18 16 0.50
19 14 0.44
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTATGAATTTTTTTATAA
Found at i:30272143 original size:18 final size:18
Alignment explanation
Indices: 30272082--30272134 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
30272072 TTTTATGAAC
*
30272082 TTTTTATAATTTATAATT
1 TTTTTATAATTTTTAATT
* *
30272100 TTTTTTTACTTTTTGAATT
1 TTTTTATAATTTTT-AATT
30272119 TTTTTATAATTTTTAA
1 TTTTTATAATTTTTAA
30272135 ATTATTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTATAATTTTTAATT
Found at i:30272367 original size:2 final size:2
Alignment explanation
Indices: 30272360--30272384 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30272350 AATCAGGATA
30272360 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
30272385 AAATTAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30272593 original size:31 final size:31
Alignment explanation
Indices: 30272558--30272616 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
30272548 TTTAGCCTCC
*
30272558 AAATATTTTCCTTTA-CTCAAATAGGTACTTA
1 AAATATTTT-CTTTATCCCAAATAGGTACTTA
*
30272589 AAATATTTTTTTTATCCCAAATAGGTAC
1 AAATATTTTCTTTATCCCAAATAGGTAC
30272617 CAAAACTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (31 bp):
AAATATTTTCTTTATCCCAAATAGGTACTTA
Found at i:30278308 original size:17 final size:17
Alignment explanation
Indices: 30278286--30278319 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30278276 TAGCTGATAC
30278286 TCTATTAATCCATCAAA
1 TCTATTAATCCATCAAA
30278303 TCTATTAATCCATCAAA
1 TCTATTAATCCATCAAA
30278320 CCCTAACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (17 bp):
TCTATTAATCCATCAAA
Found at i:30281169 original size:3 final size:3
Alignment explanation
Indices: 30281117--30281153 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
30281107 TTTCATTTTC
30281117 ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
30281154 TCTACTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:30281669 original size:19 final size:18
Alignment explanation
Indices: 30281638--30281673 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30281628 TTATATGCAG
30281638 TTTTAAATTTTATTTTAT
1 TTTTAAATTTTATTTTAT
*
30281656 TTTTGAATTATTATTTTA
1 TTTTAAATT-TTATTTTA
30281674 AGCTATTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTAAATTTTATTTTAT
Found at i:30282668 original size:250 final size:250
Alignment explanation
Indices: 30282227--30283007 Score: 1082
Period size: 250 Copynumber: 3.0 Consensus size: 250
30282217 ATCCTTTTTA
30282227 AAATTTCAATGCATGAGTTTTGGAAATCATGAGATGATTTTGGGCATCGAAGGTTGGAAATGTCG
1 AAATTTCAATGCATGAGTTTTGGAAATCATGAGATGATTTTGGGCATCGAAGGTTGGAAATGTCG
30282292 TGTCCTACGTGTTGGATGTGATATTTTACTCCTTCGAAACAAGAGAATCTTAATATCCACTTCAA
66 TGTCCTACGTGTTGGATGTGATATTTTACTCCTTCGAAACAAGAGAATCTTAATATCCACTTCAA
*
30282357 GTTAGCTAAACATTCATAAAAAGGGATTGTATTTCCAAATTTGTTTTAAATCTTTTCAATTTTCG
131 GTTAGCTAAACATTCATAAAAAGGGATCGTATTTCCAAATTTGTTTTAAATCTTTTCAATTTTCG
30282422 ATATTAAGACATTAATTAATCAATTAGGTACCAATTTTGGGCATTACGATGGTGC
196 ATATTAAGACATTAATTAATCAATTAGGTACCAATTTTGGGCATTACGATGGTGC
30282477 AAATTTCAATGCATGAGTTTTGGAAATCATGAGATGATTTTGGGCATCGAAGGTTGGAAATGTCG
1 AAATTTCAATGCATGAGTTTTGGAAATCATGAGATGATTTTGGGCATCGAAGGTTGGAAATGTCG
* *
30282542 TGTCCTACTTGTTGGATGTGATATTTTACTCCTTCGAAACAAAAGAATCTTAATATCCACTTCAA
66 TGTCCTACGTGTTGGATGTGATATTTTACTCCTTCGAAACAAGAGAATCTTAATATCCACTTCAA
30282607 GTTAGCTAAACATTCATAAAAAGGGATCGTATTTCCAAATTTGTTTTAAATCTTTTCAATTTTCG
131 GTTAGCTAAACATTCATAAAAAGGGATCGTATTTCCAAATTTGTTTTAAATCTTTTCAATTTTCG
* * * *
30282672 ATATTAAGATATTAATTAATCAATTAGGTACCAATTTT-GACATTAATTAATCAATTAGGTATC
196 ATATTAAGACATTAATTAATCAATTAGGTACCAATTTTGGGC----ATT-A-CGA-T-GGT-GC
* ** * ** *
30282735 AATTTTGGGCGTTACGAGGGTGAAAATTT--CAATGCATGAGTTTTGGAAATCATGAGATGATTT
1 AAATTT---CAATGC-A---TG-AGTTTTGGAAAT-CATGAG----------------ATGATTT
30282798 TGGGCATCGAAGGTTGGAAATGTCGTGTCCTACGTGTTGGATGTGATATTTTACTCCTTCGAAAC
41 TGGGCATCGAAGGTTGGAAATGTCGTGTCCTACGTGTTGGATGTGATATTTTACTCCTTCGAAAC
*
30282863 AAGATAATCTTAATATCCACTTCAAGTTAGCTAAACATTCATAAAAAGGGATCGTATTTCCAAAT
106 AAGAGAATCTTAATATCCACTTCAAGTTAGCTAAACATTCATAAAAAGGGATCGTATTTCCAAAT
30282928 TTGTTTTAAATCTTTTCAATTTTCGATATTAAGACATTAATTAATCAATTAGGTACCAATTTTGG
171 TTGTTTTAAATCTTTTCAATTTTCGATATTAAGACATTAATTAATCAATTAGGTACCAATTTTGG
* *
30282993 GCGTTACGAGGGTGC
236 GCATTACGATGGTGC
30283008 TAATCCTTCC
Statistics
Matches: 473, Mismatches: 23, Indels: 47
0.87 0.04 0.09
Matches are distributed among these distances:
249 2 0.00
250 229 0.48
253 3 0.01
254 1 0.00
255 2 0.00
256 1 0.00
257 3 0.01
258 6 0.01
261 3 0.01
262 1 0.00
264 3 0.01
265 8 0.02
266 4 0.01
273 1 0.00
274 3 0.01
276 2 0.00
277 1 0.00
278 2 0.00
281 196 0.41
282 2 0.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.36
Consensus pattern (250 bp):
AAATTTCAATGCATGAGTTTTGGAAATCATGAGATGATTTTGGGCATCGAAGGTTGGAAATGTCG
TGTCCTACGTGTTGGATGTGATATTTTACTCCTTCGAAACAAGAGAATCTTAATATCCACTTCAA
GTTAGCTAAACATTCATAAAAAGGGATCGTATTTCCAAATTTGTTTTAAATCTTTTCAATTTTCG
ATATTAAGACATTAATTAATCAATTAGGTACCAATTTTGGGCATTACGATGGTGC
Found at i:30282718 original size:31 final size:31
Alignment explanation
Indices: 30282682--30282741 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
30282672 ATATTAAGAT
30282682 ATTAATTAATCAATTAGGTACCAATTTTGAC
1 ATTAATTAATCAATTAGGTACCAATTTTGAC
*
30282713 ATTAATTAATCAATTAGGTATCAATTTTG
1 ATTAATTAATCAATTAGGTACCAATTTTG
30282742 GGCGTTACGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (31 bp):
ATTAATTAATCAATTAGGTACCAATTTTGAC
Done.