Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 94 of 352
Found at i:29792846 original size:27 final size:28
Alignment explanation
Indices: 29792813--29792893 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
29792803 TCTACAAACT
29792813 AAGGGTATTTC-AGTAATTTTGTAAA-CC
1 AAGGGTATTTCTA-TAATTTTGTAAAGCC
* *
29792840 AATGGTATTTCTATAATTTT-TAGAAAGTC
1 AAGGGTATTTCTATAATTTTGT--AAAGCC
29792869 AAGGGTATTTCTATAATTTTGTAAA
1 AAGGGTATTTCTATAATTTTGTAAA
29792894 TCAGGGGTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
26 1 0.02
27 17 0.37
28 7 0.15
29 20 0.43
30 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (28 bp):
AAGGGTATTTCTATAATTTTGTAAAGCC
Found at i:29792912 original size:27 final size:27
Alignment explanation
Indices: 29792805--29792998 Score: 146
Period size: 27 Copynumber: 7.1 Consensus size: 27
29792795 GTGTTTTGTC
**
29792805 TACAAA-CTAAGGGTATTTCAGTAATTT
1 TACAAATC-AAGGGTATTTTGGTAATTT
** * * *
29792832 TGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTT-TGGTAA-TTT
* *
29792860 TAGAAAGTCAAGGGTATTTCT-ATAATTT
1 TACAAA-TCAAGGGTATTT-TGGTAATTT
** *
29792888 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTT
* *
29792915 TACAAATTAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTT
* *
29792942 CACAAA-CCAGTGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTTGGTAATTT
29792969 TACAAA-CTAAGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTTGGTAATTT
29792996 TAC
1 TAC
29792999 CCTATAGGGG
Statistics
Matches: 136, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.02
27 100 0.74
28 17 0.12
29 16 0.12
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTTGGTAATTT
Found at i:29792957 original size:54 final size:54
Alignment explanation
Indices: 29792805--29792996 Score: 224
Period size: 54 Copynumber: 3.5 Consensus size: 54
29792795 GTGTTTTGTC
* * *
29792805 TACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTT-TGGTAA-TTT
* * ** * *
29792860 TAGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACT-AAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTGGTAATTT
* ***
29792915 TACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTGGTAATTT
*
29792969 TACAAACTAAGGGTATTTTGGTAATTTT
1 TACAAACTAAGGGTATTTCGGTAATTTT
29792997 ACCCTATAGG
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 64 0.56
55 16 0.14
56 35 0.30
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTGGTAATTT
Found at i:29793034 original size:27 final size:27
Alignment explanation
Indices: 29792896--29793027 Score: 122
Period size: 27 Copynumber: 4.9 Consensus size: 27
29792886 TTTGTAAATC
* * *
29792896 AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTCGGTAATTTCACAAACT
* *
29792923 AAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTCACAAACT
* * *
29792950 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTCACAAACT
* * * **
29792977 AAGGGTATTTTGGTAATTTTACCCTA-T
1 AGGGGTATTTCGGTAATTTCA-CAAACT
*
29793004 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTCACAA
29793028 TCGAGGGTAA
Statistics
Matches: 84, Mismatches: 20, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
26 1 0.01
27 81 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAACT
Found at i:29793056 original size:27 final size:27
Alignment explanation
Indices: 29793026--29793090 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
29793016 GTAATTTCAC
* * *
29793026 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
* *
29793053 AATCGATGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
29793080 AATCTAGGGTA
1 AATCGAGGGTA
29793091 CATTGGTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:29795318 original size:31 final size:31
Alignment explanation
Indices: 29795269--29795336 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
29795259 TCAGTCTCGA
*
29795269 CATAT-ACTCGGCCGAAGCCTTTTCATAAAT
1 CATATCACTCGGCCAAAGCCTTTTCATAAAT
* *
29795299 TATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTCGGCCAAAGCCTTTTCATAAAT
29795330 CATATCA
1 CATATCA
29795337 TTAGCCGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (31 bp):
CATATCACTCGGCCAAAGCCTTTTCATAAAT
Found at i:29795350 original size:30 final size:31
Alignment explanation
Indices: 29795279--29795351 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
29795269 CATATACTCG
* *
29795279 GCCGAAGCCTTTTCATAAATTATATCACTGG
1 GCCGAAGCCTTTTCATAAATCATATCACTGA
* *
29795310 GCCAAAGCCTTTTCATAAATCATATCA-TTA
1 GCCGAAGCCTTTTCATAAATCATATCACTGA
29795340 GCCGAAGCCTTT
1 GCCGAAGCCTTT
29795352 ACTGTAAGCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (31 bp):
GCCGAAGCCTTTTCATAAATCATATCACTGA
Found at i:29795590 original size:25 final size:24
Alignment explanation
Indices: 29795562--29795640 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
29795552 AGGCCTAGCT
29795562 TTTTTTAATAACTGGGGCAAAGCCC
1 TTTTTT-ATAACTGGGGCAAAGCCC
* *
29795587 TTTTTGATAAACTGGGGTAAAGCCC
1 TTTTTTAT-AACTGGGGCAAAGCCC
* *
29795612 TTTTCGGTA-AACTGGGGCATAGCCC
1 TTTT--TTATAACTGGGGCAAAGCCC
29795637 TTTT
1 TTTT
29795641 AGCATTTCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 2 0.04
25 42 0.93
27 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (24 bp):
TTTTTTATAACTGGGGCAAAGCCC
Found at i:29796484 original size:27 final size:27
Alignment explanation
Indices: 29796449--29796505 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
29796439 GGGCATATTC
* *
29796449 GTCATTTTATCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
29796476 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
29796503 GTC
1 GTC
29796506 TTTTTACCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:29796597 original size:27 final size:27
Alignment explanation
Indices: 29796567--29796652 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
29796557 GTAAATCTAC
29796567 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
* *
29796594 AAACTAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* * *
29796620 AGAAAGTCAAGGGTATTTTTTTAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
29796650 AAA
1 AAA
29796653 TTAGGGGTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 1 0.02
27 21 0.45
28 7 0.15
29 17 0.36
30 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:29796671 original size:27 final size:27
Alignment explanation
Indices: 29796630--29796753 Score: 131
Period size: 27 Copynumber: 4.6 Consensus size: 27
29796620 AGAAAGTCAA
** ** *
29796630 GGGTATTTTTTTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
29796657 GGGTATTTTGGTAATTTTACATATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
29796684 GGGTATTTCGATAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
29796711 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
29796738 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
29796754 CTACCCTGTA
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.45
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:29796769 original size:81 final size:81
Alignment explanation
Indices: 29796631--29796786 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
29796621 GAAAGTCAAG
** ** * * *
29796631 GGTATTTTTTTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACATATTAAGGGTATTTC-GA
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACATAGTAAGGGTATTTCAG-
29796695 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
* *
29796712 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCT-GTAGGGGTATTTCAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CATAGTAAGGGTATTTCAG
29796776 TAATTTCACAA
65 TAATTTCACAA
29796787 TCGATGGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 61 0.95
82 3 0.05
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACATAGTAAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:29799706 original size:44 final size:43
Alignment explanation
Indices: 29799617--29799718 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 43
29799607 GCGAATTGGA
* *
29799617 ATAGCTTCGGCT-AT-ATGA-GGCACTAAGTGTGCGATATCGAG
1 ATAGCTTCGGCTAATCA-GATGGCACTAAGTGTACGAGATCGAG
* **
29799658 ATAGCTTCGGCTTAATCAGATGGCACTAAGTGTATGAGATCGTT
1 ATAGCTTCGGC-TAATCAGATGGCACTAAGTGTACGAGATCGAG
*
29799702 ATAGCTTCGTCTAATCA
1 ATAGCTTCGGCTAATCA
29799719 CTAATTTACT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 11 0.22
42 1 0.02
43 10 0.20
44 29 0.57
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
ATAGCTTCGGCTAATCAGATGGCACTAAGTGTACGAGATCGAG
Found at i:29802121 original size:21 final size:21
Alignment explanation
Indices: 29802095--29802143 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
29802085 TCCAATTTAG
29802095 AAAAGGCTAATTTTGAGGGCT
1 AAAAGGCTAATTTTGAGGGCT
29802116 AAAAGGCTAATTTTGAGGGCT
1 AAAAGGCTAATTTTGAGGGCT
29802137 AAAAGGC
1 AAAAGGC
29802144 ATTCCAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.29, T:0.24
Consensus pattern (21 bp):
AAAAGGCTAATTTTGAGGGCT
Found at i:29810206 original size:27 final size:27
Alignment explanation
Indices: 29810176--29810353 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29810166 ATATTGAGTC
* * * *
29810176 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29810203 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29810230 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29810258 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29810285 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29810312 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29810339 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29810354 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29810315 original size:82 final size:81
Alignment explanation
Indices: 29810197--29810352 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29810187 TGCTATATAA
* *
29810197 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29810262 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29810279 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29810343 CACTTAGTGC
65 CACTTAGTGC
29810353 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29819726 original size:33 final size:32
Alignment explanation
Indices: 29819653--29819730 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
29819643 CAGTATTTAT
* * * *
29819653 ATGTAAGACCATAGCTGGGTTATATCATTCTA
1 ATGTAAGACCATAACTGGGTTATAGCATACGA
*
29819685 ATGATAAGACCATAACTGGGTTATGGCACTACGA
1 ATG-TAAGACCATAACTGGGTTATAGCA-TACGA
29819719 ATGTAAGACCAT
1 ATGTAAGACCAT
29819731 GGCAGGGCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.08
33 30 0.77
34 6 0.15
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGTTATAGCATACGA
Found at i:29834229 original size:18 final size:18
Alignment explanation
Indices: 29834203--29834239 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29834193 ACTTGATAAG
*
29834203 TTAGTTGAATAGTATATT
1 TTAGCTGAATAGTATATT
*
29834221 TTAGCTGAATTGTATATT
1 TTAGCTGAATAGTATATT
29834239 T
1 T
29834240 CTGAGTTTGT
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:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (18 bp):
TTAGCTGAATAGTATATT
Found at i:29836544 original size:44 final size:43
Alignment explanation
Indices: 29836444--29836564 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 43
29836434 AAAATCTGAA
* *
29836444 CTCGTTGAGTTGGTCC-AGGTTCGTGATATGTATGAGGCATCCAAG
1 CTCGTTGAGTTGGTCCGA-GTTCAT--TATGGATGAGGCATCCAAG
* * * *
29836489 CTCGTTAAGTTGGTCCGAGTTCATTATGGATGCGAGCATTCGAG
1 CTCGTTGAGTTGGTCCGAGTTCATTATGGATGAG-GCATCCAAG
*
29836533 CTCGTTGAGTTGGTCCGAGTTCATTACGGATG
1 CTCGTTGAGTTGGTCCGAGTTCATTATGGATG
29836565 TGATACATGT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
43 8 0.12
44 37 0.56
45 20 0.30
46 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.32
Consensus pattern (43 bp):
CTCGTTGAGTTGGTCCGAGTTCATTATGGATGAGGCATCCAAG
Found at i:29839466 original size:29 final size:29
Alignment explanation
Indices: 29839424--29839483 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
29839414 AGGTTCTCGG
* *
29839424 TTACCTCTTGGATTGCGGTTTATCTTTTC
1 TTACCCCTTGGATTGCGATTTATCTTTTC
29839453 TTACCCCTTGGATTGCGATTTATCTTTTC
1 TTACCCCTTGGATTGCGATTTATCTTTTC
29839482 TT
1 TT
29839484 GATCGATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.12, C:0.22, G:0.15, T:0.52
Consensus pattern (29 bp):
TTACCCCTTGGATTGCGATTTATCTTTTC
Found at i:29841303 original size:20 final size:20
Alignment explanation
Indices: 29841275--29841315 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
29841265 GTACACAACT
29841275 TAACAATTTAGTATGGGTCA
1 TAACAATTTAGTATGGGTCA
*
29841295 TAACGATTTAGTATGGGTCA
1 TAACAATTTAGTATGGGTCA
29841315 T
1 T
29841316 GTTTTGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (20 bp):
TAACAATTTAGTATGGGTCA
Found at i:29845635 original size:27 final size:27
Alignment explanation
Indices: 29845605--29845781 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
29845595 ATATTGAGCC
* *
29845605 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
29845632 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
29845659 CGCACACTTAGTGCTACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
29845686 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
29845713 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
29845740 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
29845767 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29845782 GTACAATTTA
Statistics
Matches: 121, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
26 4 0.03
27 114 0.94
28 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29845690 original size:54 final size:54
Alignment explanation
Indices: 29845605--29845781 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
29845595 ATATTGAGCC
* * * *
29845605 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
* * ** *
29845659 CGCACACTTAGTGCTACATAGTCAAAC-CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCCACATAATCAAAT
* ** *
29845713 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAA-TCA-AAT
29845767 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29845782 GTACAATTTA
Statistics
Matches: 100, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
53 3 0.03
54 94 0.94
55 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAAT
Found at i:29861249 original size:16 final size:16
Alignment explanation
Indices: 29861228--29861259 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
29861218 ACTTGGGGAC
29861228 GAGGATTCATATTTCT
1 GAGGATTCATATTTCT
29861244 GAGGATTCATATTTCT
1 GAGGATTCATATTTCT
29861260 TGACTTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (16 bp):
GAGGATTCATATTTCT
Found at i:29863688 original size:93 final size:93
Alignment explanation
Indices: 29863583--29863845 Score: 427
Period size: 93 Copynumber: 2.8 Consensus size: 93
29863573 CCCCTAAGTG
* ** * * * * *
29863583 AACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTAAAT
1 AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTTAAC
*
29863648 GAGTTCGGATGCCTAGTTAGATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
*
29863676 AACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTTAAC
1 AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTTAAC
*
29863741 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACA
29863769 AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTTAAC
1 AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTTAAC
29863834 GAGTTCGGATGC
66 GAGTTCGGATGC
29863846 TCAACCATCC
Statistics
Matches: 158, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 158 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTTAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:29863699 original size:47 final size:47
Alignment explanation
Indices: 29863628--29863794 Score: 173
Period size: 47 Copynumber: 3.6 Consensus size: 47
29863618 ATCCATAAGT
* *
29863628 GAACTCGGACTCAACTAAATGAGTTCGGATGCCTAGTTAGATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTAGATCTCAC
* * * * * *
29863675 AAACTCAGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCCGTAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTAG-AT-C-TCA-C
* *
29863721 GAACTCGGACTCAACTTAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTAGATCTCAC
29863768 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
29863795 AACATTCGCA
Statistics
Matches: 94, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 25 0.27
47 50 0.53
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTAGATCTCAC
Found at i:29863742 original size:46 final size:46
Alignment explanation
Indices: 29863577--29863840 Score: 202
Period size: 46 Copynumber: 5.7 Consensus size: 46
29863567 AACCCGCCCC
* ** * * *
29863577 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
* * * *
29863623 TAAGTGAACTCGGACTCAACTAAATGAGTTCGGATGCCTAGTTAG-AT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCCG
* ** *
29863671 TCA-CAAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
* * *
29863716 TAAGTGAACTCGGACTCAACTTAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCCG
* *
29863764 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
*
29863809 TAAGTGAACTCGGACTCAACTTAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
29863841 GATGCTCAAC
Statistics
Matches: 170, Mismatches: 30, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
42 5 0.03
43 7 0.04
44 4 0.02
45 4 0.02
46 81 0.48
47 50 0.29
48 4 0.02
49 4 0.02
50 6 0.04
51 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
Found at i:29865642 original size:27 final size:27
Alignment explanation
Indices: 29865612--29865699 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
29865602 ATAACCAAAG
*
29865612 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
29865639 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
29865666 TACCCTCAATTTACA-AAGTTACCGTTT
1 TACCCTCGATTTACAGAA-TTACTGTTT
29865693 TACCCTC
1 TACCCTC
29865700 AATTATGGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.04
27 50 0.96
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:29865765 original size:27 final size:27
Alignment explanation
Indices: 29865708--29865858 Score: 148
Period size: 27 Copynumber: 5.6 Consensus size: 27
29865698 TCAATTATGG
* ** *
29865708 AATTACTAAAATACCCCTA-TAGGGTAG
1 AATTACCAAAATACCCCTAGT-TTGTAA
29865735 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
29865762 AATTACCAAAATACCACTGGTTTGTGAA
1 AATTACCAAAATACCCCTAGTTTGT-AA
* *
29865790 AA-TACCGAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
**
29865816 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
29865843 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
29865859 TTAACTTTCT
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.06
27 94 0.90
28 5 0.05
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:29865854 original size:54 final size:54
Alignment explanation
Indices: 29865735--29865914 Score: 195
Period size: 54 Copynumber: 3.3 Consensus size: 54
29865725 TATAGGGTAG
* **
29865735 AATTACCA-AAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAA
1 AATTA-CAGAAATACCCCTAATTTGTAAAATTACCAAAATACCACTGGTTT-ACAA
* * *
29865790 AA-TACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACAGAAATACCCCTAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * *
29865843 AATTACAGAAATACCCTTAACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACAGAAATACCCCTAA-TTTGT-AAAATTACCA-AAATACCACTGGTTTACAA
*
29865899 AATTACTGAAATACCC
1 AATTACAGAAATACCC
29865915 TTGGTTTGTA
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
53 5 0.05
54 56 0.53
55 7 0.07
56 38 0.36
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.29
Consensus pattern (54 bp):
AATTACAGAAATACCCCTAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:29865909 original size:27 final size:27
Alignment explanation
Indices: 29865870--29865921 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
29865860 TAACTTTCTA
29865870 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
29865897 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
29865922 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:29866005 original size:27 final size:26
Alignment explanation
Indices: 29865975--29866035 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
29865965 CCCCCTAATA
29865975 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAA-ACCGTAATA-CCCCTGTAG
* *
29866002 GGTAAAGTAACCGTAATACCCCTGTAT
1 GGTAAA-AAACCGTAATACCCCTGTAG
29866029 GGTAAAA
1 GGTAAAA
29866036 TGGAAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
GGTAAAAAACCGTAATACCCCTGTAG
Found at i:29866887 original size:25 final size:25
Alignment explanation
Indices: 29866849--29866918 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
29866839 AGGAAGTGCT
* *
29866849 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
29866874 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
29866899 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
29866919 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:29866931 original size:24 final size:24
Alignment explanation
Indices: 29866848--29866931 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
29866838 GAGGAAGTGC
* *
29866848 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
29866873 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
29866897 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
29866921 TAAAAGAGGCT
1 TAAAAG-GGCT
29866932 AGGCCTCCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 37 0.74
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:29870862 original size:22 final size:23
Alignment explanation
Indices: 29870821--29870923 Score: 106
Period size: 22 Copynumber: 4.6 Consensus size: 23
29870811 TTTAGCTCAT
*
29870821 TAGAGCTTACCGTTTCAGCTCGTA
1 TAGAGCTTACTG-TTCAGCTCGTA
*
29870845 T-GAGCTTACTGTTCAGCTC-AA
1 TAGAGCTTACTGTTCAGCTCGTA
*
29870866 TAGAGCTTACTGTTTAGCTCG-A
1 TAGAGCTTACTGTTCAGCTCGTA
* *
29870888 TAGAGCTTACCGTTTCAGCTC-AA
1 TAGAGCTTACTG-TTCAGCTCGTA
*
29870911 TATAGCTTACTGT
1 TAGAGCTTACTGT
29870924 CCATCAGCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
21 2 0.03
22 38 0.56
23 27 0.40
24 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGAGCTTACTGTTCAGCTCGTA
Found at i:29870921 original size:45 final size:45
Alignment explanation
Indices: 29870814--29870923 Score: 152
Period size: 45 Copynumber: 2.4 Consensus size: 45
29870804 CCTTTTTTTT
* * *
29870814 AGCTCATTAGAGCTTACCGTTTCAGCTCGTATGAGCTTACTGTTC
1 AGCTCAATAGAGCTTACTGTTTCAGCTCGTATGAGCTTACCGTTC
29870859 AGCTCAATAGAGCTTACTGTTT-AGCTCG-ATAGAGCTTACCGTTTC
1 AGCTCAATAGAGCTTACTGTTTCAGCTCGTAT-GAGCTTACCG-TTC
*
29870904 AGCTCAATATAGCTTACTGT
1 AGCTCAATAGAGCTTACTGT
29870924 CCATCAGCAC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 2 0.03
44 15 0.25
45 42 0.71
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (45 bp):
AGCTCAATAGAGCTTACTGTTTCAGCTCGTATGAGCTTACCGTTC
Found at i:29875250 original size:27 final size:27
Alignment explanation
Indices: 29875220--29875397 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
29875210 ATATTGAGCC
* *
29875220 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
29875247 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
29875274 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
29875302 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
29875329 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
29875356 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
29875383 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29875398 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29875332 original size:55 final size:54
Alignment explanation
Indices: 29875220--29875397 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
29875210 ATATTGAGCC
* * *
29875220 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
29875274 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
29875329 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
29875383 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29875398 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:29883250 original size:27 final size:27
Alignment explanation
Indices: 29883220--29883396 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
29883210 ATATTGAGCC
* *
29883220 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
29883247 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
29883274 CGCACACTTAGTGCTACATAGTTAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
29883301 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
29883328 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
29883355 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
29883382 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29883397 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.02
27 118 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29883302 original size:54 final size:52
Alignment explanation
Indices: 29883220--29883396 Score: 160
Period size: 54 Copynumber: 3.3 Consensus size: 52
29883210 ATATTGAGCC
* * * *
29883220 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATTAACTCGCACACTTAGTGCCAC-TAATCAAAT
* ** *
29883274 CGCACACTTAGTGCTACATAGTTAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TTAACTCGCACACTTAGTGCCAC-TAATCAAAT
** * *
29883328 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACAAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATATT-AACTCGCACACTTAGTGCCACTAA-TCA-AAT
29883382 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29883397 GTACAATTTA
Statistics
Matches: 100, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
53 5 0.05
54 95 0.95
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (52 bp):
CGCACACTTAGTGCTACATATTAACTCGCACACTTAGTGCCACTAATCAAAT
Found at i:29888996 original size:15 final size:15
Alignment explanation
Indices: 29888978--29889006 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29888968 AATATCTTCA
29888978 TCATAATTGAAGTCT
1 TCATAATTGAAGTCT
29888993 TCATAATTGAAGTC
1 TCATAATTGAAGTC
29889007 ATACATGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
TCATAATTGAAGTCT
Found at i:29891121 original size:26 final size:26
Alignment explanation
Indices: 29891092--29891184 Score: 114
Period size: 26 Copynumber: 3.5 Consensus size: 26
29891082 AATGTTCTAG
* *
29891092 AAATTTTGCTAATGGCAAAATTATCA
1 AAATTTTACTAAGGGCAAAATTATCA
29891118 AAATTTTACTAAGGGCAAAATTATCA
1 AAATTTTACTAAGGGCAAAATTATCA
* * * *
29891144 AAATTTTACTAAGAGTAAAATTGTAAA
1 AAATTTTACTAAGGGCAAAATTAT-CA
*
29891171 AAAATTTACTAAGG
1 AAATTTTACTAAGG
29891185 TAAAATTGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 45 0.78
27 13 0.22
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTTTACTAAGGGCAAAATTATCA
Found at i:29893422 original size:30 final size:29
Alignment explanation
Indices: 29893367--29893425 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
29893357 ATGTATATTT
* *
29893367 TTTTATTAAATTGAATGTTATTATATGAA
1 TTTTATTAAAATGAATGATATTATATGAA
29893396 TTTTATTGAAAATGAATCGATATATATATG
1 TTTTATT-AAAATGAAT-GATAT-TATATG
29893426 TTATCATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 8 0.32
31 4 0.16
32 6 0.24
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (29 bp):
TTTTATTAAAATGAATGATATTATATGAA
Found at i:29896812 original size:27 final size:27
Alignment explanation
Indices: 29896782--29896907 Score: 171
Period size: 27 Copynumber: 4.7 Consensus size: 27
29896772 ACCAAAGTAT
*
29896782 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTATCGTTTTAC
*
29896809 CCTCGATTTACAGAATTATCGTTTTAC
1 CCTCGATTTATAGAATTATCGTTTTAC
**
29896836 CCTCGATTTATAGAATTATTATTTTAC
1 CCTCGATTTATAGAATTATCGTTTTAC
* * * *
29896863 CCTTGATTTACAAAATTATTGTTTTAC
1 CCTCGATTTATAGAATTATCGTTTTAC
*
29896890 CCTCGATTTATAAAATTA
1 CCTCGATTTATAGAATTA
29896908 CTAAAATACC
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (27 bp):
CCTCGATTTATAGAATTATCGTTTTAC
Found at i:29896826 original size:54 final size:54
Alignment explanation
Indices: 29896766--29896950 Score: 145
Period size: 54 Copynumber: 3.4 Consensus size: 54
29896756 CTCAAATTGT
* *
29896766 AAAATTACCAAAGTATCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
* * **** ** *
29896820 AGAATTATCGTTTTACCCTCGATTTATAGAATTATTATTTTACCCTTGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
****** * * *** * *
29896874 AAAATTATTGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
*
29896928 AAAATTACCAAAATACCCTCGAT
1 AAAATTACCAAAGTACCCTCGAT
29896951 CAGTAAAATT
Statistics
Matches: 106, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.38
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
Found at i:29896917 original size:27 final size:27
Alignment explanation
Indices: 29896887--29897167 Score: 232
Period size: 27 Copynumber: 10.4 Consensus size: 27
29896877 ATTATTGTTT
*
29896887 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
29896914 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
29896941 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * *
29896968 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
29896994 TACCC-CTAGTTTGTAAAATTACCGAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * *
29897021 TACCCTCAATTTGTAAAATTGCCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
29897048 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
29897075 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
29897102 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
29897129 TACCCTTGATTTACAAAATTA-CAGAAA
1 TACCCTCGATTTATAAAATTACCA-AAA
*
29897156 TACCCTTGATTT
1 TACCCTCGATTT
29897168 GTAGATTTAA
Statistics
Matches: 207, Mismatches: 37, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
26 25 0.12
27 179 0.86
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:29896958 original size:54 final size:55
Alignment explanation
Indices: 29896887--29897190 Score: 275
Period size: 54 Copynumber: 5.7 Consensus size: 55
29896877 ATTATTGTTT
* * **
29896887 TACCCTCGA-TTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
** * * * *
29896941 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *** *
29896994 TACCC-CTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTGCCAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
29897048 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACC-CTTGGTTTGTAAAATTACCAAAA
* * **
29897102 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTA-CAGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCA-AAA
* * * * *
29897156 TACCCTTGA-TTTGTAGATTTAACAAAACACCCTTG
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTG
29897191 TAGGATGAAA
Statistics
Matches: 207, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.01
53 42 0.20
54 160 0.77
55 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (55 bp):
TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:29896972 original size:81 final size:81
Alignment explanation
Indices: 29896887--29897170 Score: 333
Period size: 81 Copynumber: 3.5 Consensus size: 81
29896877 ATTATTGTTT
** * * *
29896887 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
*
29896952 AGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
* * * * * *
29896968 TACCCTAG-TCTGTAAAATTGCTAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCAATT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
*
29897032 TGTAAAATTGCCAAAA
66 TGTAAAATTACCAAAA
* * * *
29897048 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAA
1 TACCCTCGA-TTTATAAAATTACTAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAA
29897111 TTTGTAAAATTACCAAAA
64 TTTGTAAAATTACCAAAA
* * *
29897129 TACCCTTGATTTACAAAATTAC-AGAAATACCCTTGATTTGTA
1 TACCCTCGATTTATAAAATTACTA-AAATACCCTTGGTTTGTA
29897171 GATTTAACAA
Statistics
Matches: 170, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
80 67 0.39
81 101 0.59
82 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
TGTAAAATTACCAAAA
Found at i:29898159 original size:25 final size:26
Alignment explanation
Indices: 29898088--29898184 Score: 153
Period size: 25 Copynumber: 3.8 Consensus size: 26
29898078 GAGGAGGTGC
*
29898088 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
29898114 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
29898140 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
29898165 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
29898185 ATTAAAGAGG
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 33 0.50
26 33 0.50
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:29898165 original size:51 final size:51
Alignment explanation
Indices: 29898088--29898184 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
29898078 GAGGAGGTGC
*
29898088 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTATTG
29898140 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
29898185 ATTAAAGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 10 0.23
51 24 0.55
52 10 0.23
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:29898388 original size:42 final size:42
Alignment explanation
Indices: 29898329--29898420 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
29898319 TAGTCTCCCC
* * *** *
29898329 AAATGGGCTTGCTTACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
29898371 AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
29898413 AAATGGGC
1 AAATGGGC
29898421 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
Found at i:29898479 original size:31 final size:31
Alignment explanation
Indices: 29898444--29898520 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
29898434 CGTTTACAGT
29898444 AAAGGCTTCGGCCCAATGATATGATTAATGA
1 AAAGGCTTCGGCCCAATGATATGATTAATGA
* * *
29898475 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTAATGA
*
29898506 AAAGGCTTCAGCCCA
1 AAAGGCTTCGGCCCA
29898521 GTAACCGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTAATGA
Found at i:29908285 original size:13 final size:13
Alignment explanation
Indices: 29908267--29908291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29908257 ATTTTACCTC
29908267 TTTTTCTTCTTCA
1 TTTTTCTTCTTCA
29908280 TTTTTCTTCTTC
1 TTTTTCTTCTTC
29908292 CCCTTTTTAT
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:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTCTTCTTCA
Found at i:29910324 original size:34 final size:34
Alignment explanation
Indices: 29910277--29910350 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
29910267 AAGATAGACT
29910277 CAAT-TCCCAAATCAACTAAAATAGAATTATTGA
1 CAATATCCCAAATCAACTAAAATAGAATTATTGA
29910310 CAATATCCCAAATCAACTAAAATAGAATTATTGA
1 CAATATCCCAAATCAACTAAAATAGAATTATTGA
29910344 CAATATC
1 CAATATC
29910351 TATGGCAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 4 0.10
34 36 0.90
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (34 bp):
CAATATCCCAAATCAACTAAAATAGAATTATTGA
Found at i:29923044 original size:46 final size:46
Alignment explanation
Indices: 29922992--29923219 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
29922982 AGTGTGCTCT
*
29922992 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
29923038 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
29923084 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATAACATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
29923130 ATGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
29923176 ATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
29923220 TCATGTCAAA
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:29931869 original size:28 final size:29
Alignment explanation
Indices: 29931832--29931956 Score: 144
Period size: 29 Copynumber: 4.3 Consensus size: 29
29931822 AAGTCTACAT
* *
29931832 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
29931860 TCATTCATATGGCCCTTTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** * *
29931889 ACATTTGTGTGGTCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
29931918 ACATTCATACGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
29931947 ACATTCATAT
1 ACATTCATAT
29931957 ACATGCTTTC
Statistics
Matches: 77, Mismatches: 19, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
28 19 0.25
29 58 0.75
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:29932191 original size:16 final size:16
Alignment explanation
Indices: 29932167--29932202 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
29932157 GTAGCCAAAC
*
29932167 TTTCGGCTTTTCGACA
1 TTTCAGCTTTTCGACA
29932183 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
29932199 TTTC
1 TTTC
29932203 GGGATTTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.47
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:29933556 original size:18 final size:17
Alignment explanation
Indices: 29933515--29933556 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
29933505 AAATTAGGCC
29933515 GTGTGGGCCACATGGGA
1 GTGTGGGCCACATGGGA
* *
29933532 GTATGGGCCCACATGGGT
1 GTGTGGG-CCACATGGGA
29933550 GTGTGGG
1 GTGTGGG
29933557 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.14, C:0.17, G:0.48, T:0.21
Consensus pattern (17 bp):
GTGTGGGCCACATGGGA
Found at i:29933689 original size:5 final size:5
Alignment explanation
Indices: 29933679--29933757 Score: 158
Period size: 5 Copynumber: 15.8 Consensus size: 5
29933669 TTAATACTTA
29933679 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
29933729 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
29933758 ACAAAACAAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 74 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:29933848 original size:26 final size:26
Alignment explanation
Indices: 29933806--29933857 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
29933796 AAGTTCAAAC
29933806 AAAATAGAGAAGAAAAAGAATGAAAAG
1 AAAATAGAGAAGAAAAAGAA-GAAAAG
*
29933833 AAAA-AGAGAA-AGAAAAGGAGAAAAG
1 AAAATAGAGAAGA-AAAAGAAGAAAAG
29933858 TTAGGGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 7 0.30
26 12 0.52
27 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (26 bp):
AAAATAGAGAAGAAAAAGAAGAAAAG
Found at i:29940017 original size:17 final size:16
Alignment explanation
Indices: 29939984--29940017 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29939974 ATATATAATC
*
29939984 TGAAGTTTAATTTATT
1 TGAAGTTTAAATTATT
29940000 TGAAGTTTATAATTATT
1 TGAAGTTTA-AATTATT
29940017 T
1 T
29940018 TTTAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
TGAAGTTTAAATTATT
Found at i:29940423 original size:16 final size:16
Alignment explanation
Indices: 29940398--29940442 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
29940388 ACCATCATTG
*
29940398 ATATACTTAATAATTA
1 ATATAATTAATAATTA
29940414 ATATAATTAATAA-T-
1 ATATAATTAATAATTA
29940428 ATATAATT-ATAATTA
1 ATATAATTAATAATTA
29940443 TAGCACAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.15
14 9 0.35
15 1 0.04
16 12 0.46
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAATTAATAATTA
Found at i:29942018 original size:14 final size:14
Alignment explanation
Indices: 29941983--29942020 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
29941973 TGTTTCACTA
*
29941983 AAAATGACTTTCGG
1 AAAATGATTTTCGG
*
29941997 AAAATGATTTTTGG
1 AAAATGATTTTCGG
29942011 AAAATGATTT
1 AAAATGATTT
29942021 AATTTTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTTCGG
Found at i:29945271 original size:133 final size:133
Alignment explanation
Indices: 29945107--29945366 Score: 511
Period size: 133 Copynumber: 2.0 Consensus size: 133
29945097 ATTATTGAAG
29945107 TAGATAAGCAAAGACGGTAAAAATGTAAAAATGCATTTCACACACACTCTCTCTTGATTCAAGAC
1 TAGATAAGCAAAGACGGTAAAAATGTAAAAATGCATTTCACACACACTCTCTCTTGATTCAAGAC
29945172 AAAGAGGTACTTTCAAAAGTCGTCCAAATGACATTAGAGCATGTTTGGTTGGGTGTATTGGCCAA
66 AAAGAGGTACTTTCAAAAGTCGTCCAAATGACATTAGAGCATGTTTGGTTGGGTGTATTGGCCAA
29945237 TAA
131 TAA
29945240 TAGATAAGCAAAGACGGTAAAAATGTAAAAATGCATTTCACACACACTCTCTCTTGATTCAAGAC
1 TAGATAAGCAAAGACGGTAAAAATGTAAAAATGCATTTCACACACACTCTCTCTTGATTCAAGAC
*
29945305 AAAGAGGTGCTTTCAAAAGTCGTCCAAATGACATTAGAGCATGTTTGGTTGGGTGTATTGGC
66 AAAGAGGTACTTTCAAAAGTCGTCCAAATGACATTAGAGCATGTTTGGTTGGGTGTATTGGC
29945367 TATGCCAATA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 126 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (133 bp):
TAGATAAGCAAAGACGGTAAAAATGTAAAAATGCATTTCACACACACTCTCTCTTGATTCAAGAC
AAAGAGGTACTTTCAAAAGTCGTCCAAATGACATTAGAGCATGTTTGGTTGGGTGTATTGGCCAA
TAA
Found at i:29948525 original size:36 final size:38
Alignment explanation
Indices: 29948478--29948559 Score: 123
Period size: 40 Copynumber: 2.2 Consensus size: 38
29948468 TGTTGATGAT
*
29948478 AATTCAATATGGTTATG-TTTTTTT-TTTTTAGAGTTC
1 AATTCTATATGGTTATGTTTTTTTTATTTTTAGAGTTC
29948514 AATTCTATATGGTTATGTTTTTTTTTTATTTTTAGAGTTC
1 AATTCTATATGGTTATG--TTTTTTTTATTTTTAGAGTTC
29948554 AATTCT
1 AATTCT
29948560 TACTCACTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 16 0.39
39 7 0.17
40 18 0.44
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.60
Consensus pattern (38 bp):
AATTCTATATGGTTATGTTTTTTTTATTTTTAGAGTTC
Found at i:29948794 original size:59 final size:58
Alignment explanation
Indices: 29948731--29949006 Score: 151
Period size: 66 Copynumber: 4.6 Consensus size: 58
29948721 TTATTAAATT
29948731 ATATATTTTAATTA-AGATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATC
1 ATATATTTTAATTATA-ATATATTTAATAATAATTATGTTAAATTAT-TTTTATAGTATC
* * ** * * *
29948790 ATATATTATGATTTGAGTAAATTCATATGAGAATATTAATTAT-TAAGAATT-TTATTA-A--AT
1 ATATATT-TTAATT-A-T-AA-T-ATAT-TTAATAATAATTATGTTA-AATTATTTTTATAGTAT
*
29948850 T
58 C
*
29948851 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATC
1 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTAT-TTTTATAGTATC
* ** * * *
29948910 ATATATTATTATTTGAGTAAATTCATATCAGAATATTAATTAT-TAAGAATT-TTATTA-A--AT
1 ATATATT-TTAATT-A-T-AA-T-ATAT-TTAATAATAATTATGTTA-AATTATTTTTATAGTAT
*
29948970 T
58 C
*
29948971 ATATATTTTAATTAAAATATATTTAATAATAATTAT
1 ATATATTTTAATTATAATATATTTAATAATAATTAT
29949007 ATTTAAATAT
Statistics
Matches: 164, Mismatches: 30, Indels: 51
0.67 0.12 0.21
Matches are distributed among these distances:
54 25 0.15
55 11 0.07
56 6 0.04
57 5 0.03
58 1 0.01
59 18 0.11
60 18 0.11
61 20 0.12
62 1 0.01
63 5 0.03
64 11 0.07
65 14 0.09
66 29 0.18
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (58 bp):
ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATTTTTATAGTATC
Found at i:29948864 original size:120 final size:120
Alignment explanation
Indices: 29948598--29949006 Score: 705
Period size: 120 Copynumber: 3.4 Consensus size: 120
29948588 AATTATTTTA
* *
29948598 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
*
29948662 TATAGTATAATATATTATGA-TTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
29948717 AATTTTATTAAATTATATATTTTAATTAAGATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
29948782 ATAGTATCATATATTATGATTTGAGTAAATTCATATGAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
29948837 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
* *
29948902 ATAGTATCATATATTATTATTTGAGTAAATTCATATCAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
29948957 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
29949007 ATTTAAATAT
Statistics
Matches: 276, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
119 77 0.28
120 199 0.72
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:29948877 original size:15 final size:15
Alignment explanation
Indices: 29948842--29948893 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
29948832 TTAAGAATTT
*
29948842 TATTAAATTAT-ATA
1 TATTTAATTATAATA
29948856 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
29948870 TATTTAATAATAAT-
1 TATTTAATTATAATA
29948884 TATGTTAATT
1 TAT-TTAATT
29948894 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:29948975 original size:61 final size:60
Alignment explanation
Indices: 29948790--29948977 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 60
29948780 TTATAGTATC
*
29948790 ATATATTATGATTTGAGTAAATTCATATGAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATAT-AGAATATTAATTATTAAGAATTTTATTAAATT
* ** * * *
29948851 ATATATT-TTAATT-A-T-AA-T-ATATTTAATAATAATTATGTTAATTTATATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAATTCATATAGAATATTAATTA--TTAA--GA-ATTTTATTA-AAT
*
29948909 C
60 T
29948910 ATATATTATTATTTGAGTAAATTCATATCAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATAT-AGAATATTAATTATTAAGAATTTTATTAAATT
29948971 ATATATT
1 ATATATT
29948978 TTAATTAAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
54 10 0.10
55 4 0.04
56 5 0.05
57 2 0.02
58 4 0.04
59 16 0.16
60 9 0.09
61 23 0.23
62 4 0.04
63 2 0.02
64 5 0.05
65 4 0.04
66 10 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (60 bp):
ATATATTATTATTTGAGTAAATTCATATAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:29948986 original size:18 final size:18
Alignment explanation
Indices: 29948958--29949008 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
29948948 ATTATTAAGA
29948958 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
29948975 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
29948991 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
29949009 TTAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:29949183 original size:39 final size:40
Alignment explanation
Indices: 29949140--29949244 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
29949130 TTCCATTATG
29949140 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
29949179 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
29949224 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
29949245 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:29949238 original size:45 final size:44
Alignment explanation
Indices: 29949138--29949247 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
29949128 TTTTCCATTA
29949138 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
29949177 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
29949222 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
29949248 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:29949247 original size:16 final size:16
Alignment explanation
Indices: 29949228--29949279 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
29949218 GATTTGCTAT
* *
29949228 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
29949244 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
29949260 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
29949276 TACA
1 TACA
29949280 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:29950142 original size:31 final size:31
Alignment explanation
Indices: 29950107--29950166 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
29950097 TAACAACCAA
*
29950107 GTGACTTAAATAAAAATTTTCA-AATAGTTTT
1 GTGACTTAAATAAAAACTTT-AGAATAGTTTT
*
29950138 GTGACTTAAATGAAAACTTTAGAATAGTT
1 GTGACTTAAATAAAAACTTTAGAATAGTT
29950167 AGAAATCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (31 bp):
GTGACTTAAATAAAAACTTTAGAATAGTTTT
Found at i:29956424 original size:37 final size:37
Alignment explanation
Indices: 29956365--29956473 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
29956355 AGCTCAGACG
* *
29956365 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
29956402 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
29956439 TAATCTCCACACGTAGTCATCGAGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
29956474 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:29956704 original size:47 final size:47
Alignment explanation
Indices: 29956635--29956818 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
29956625 TTTCACACTA
* * * *
29956635 GCCATTCGGCTTTA-C-CACATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
*
29956680 GGCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
*
29956727 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
* *
29956774 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACAT
29956819 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 12 0.09
46 1 0.01
47 116 0.90
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
Found at i:29956745 original size:22 final size:22
Alignment explanation
Indices: 29956718--29956793 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
29956708 GCTCACATTC
29956718 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
29956740 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
29956764 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
29956787 ATCACAT
1 ATCACAT
29956794 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:29961638 original size:25 final size:25
Alignment explanation
Indices: 29961610--29961663 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
29961600 AAAGCGCTAG
*
29961610 AAGGACAAGATAAAG-ATACGCCATA
1 AAGG-CAACATAAAGAATACGCCATA
**
29961635 AAGGCAACATATGGAATACGCCATA
1 AAGGCAACATAAAGAATACGCCATA
29961660 AAGG
1 AAGG
29961664 TTAACAGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (25 bp):
AAGGCAACATAAAGAATACGCCATA
Found at i:29961702 original size:20 final size:20
Alignment explanation
Indices: 29961654--29961703 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
29961644 TATGGAATAC
*
29961654 GCCATAAAGGTTAACAGAGT
1 GCCATAAAGGTTAACAGAAT
* *
29961674 ACCATAAAGGTTAATAGAAT
1 GCCATAAAGGTTAACAGAAT
*
29961694 GCCACAAAGG
1 GCCATAAAGG
29961704 CCAAACCAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (20 bp):
GCCATAAAGGTTAACAGAAT
Found at i:29963446 original size:17 final size:16
Alignment explanation
Indices: 29963415--29963479 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
29963405 TATTTTAGAT
29963415 TATTATTCATTTTTTA
1 TATTATTCATTTTTTA
29963431 TATTATTCATTGTTTTA
1 TATTATTCATT-TTTTA
29963448 -A--ATT-A--TTTTA
1 TATTATTCATTTTTTA
*
29963458 TGTTATTCATTTTTTA
1 TATTATTCATTTTTTA
29963474 T-TTATT
1 TATTATT
29963480 TTCGTTTGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
10 5 0.12
13 4 0.10
14 4 0.10
15 5 0.12
16 18 0.44
17 5 0.12
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTATTCATTTTTTA
Found at i:29963463 original size:27 final size:25
Alignment explanation
Indices: 29963426--29963481 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
29963416 ATTATTCATT
29963426 TTTTATATTATTCATTGTTTTAAATTA
1 TTTTATATTATTCATT-TTTT-AATTA
* *
29963453 TTTTATGTTATTCATTTTTTATTTA
1 TTTTATATTATTCATTTTTTAATTA
29963478 TTTT
1 TTTT
29963482 CGTTTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 8 0.30
26 4 0.15
27 15 0.56
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTATATTATTCATTTTTTAATTA
Found at i:29968350 original size:79 final size:82
Alignment explanation
Indices: 29968239--29968423 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
29968229 GCTACTCGTT
* *
29968239 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29968302 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
29968319 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
29968382 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
29968399 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29968424 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:29968423 original size:40 final size:40
Alignment explanation
Indices: 29968220--29968423 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
29968210 CGGAATTTAA
** *
29968220 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29968260 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29968300 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29968339 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29968379 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29968419 CCGGA
1 CCGGA
29968424 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29976626 original size:79 final size:79
Alignment explanation
Indices: 29976532--29976749 Score: 219
Period size: 79 Copynumber: 2.7 Consensus size: 79
29976522 AAATCACGTA
* ** *
29976532 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTAT
1 CCTTCGGAACTTAACCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CATAGCCCGGAAT-T
29976594 AGTAACTCGCACAAATG
63 AGTAACTCGCACAAATG
* * *
29976611 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
1 CCTTCGGAACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGCATAGCCCGGAATTAGT
*
29976676 ATCTCGCACAAATG
66 AACTCGCACAAATG
* ** * * * * *
29976690 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCGTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-CATAGCCCGGA
29976750 CATCATTCAA
Statistics
Matches: 117, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
79 69 0.59
80 48 0.41
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGAACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGCATAGCCCGGAATTAGT
AACTCGCACAAATG
Found at i:29976749 original size:40 final size:40
Alignment explanation
Indices: 29976546--29976749 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
29976536 CGGAATTTAA
** *
29976546 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29976586 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29976626 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29976665 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
29976705 CCGGATATGGTCACTTAGCACAAA-GCCGTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29976745 CCGGA
1 CCGGA
29976750 CATCATTCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29983118 original size:20 final size:21
Alignment explanation
Indices: 29983093--29983132 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
29983083 CACTTAGAAC
29983093 AGGGC-ACACGCCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
29983113 AGGGCAACACGCCCGTGTAG
1 AGGGCAACACGCCCGTGTAG
29983133 CCCTGTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.25, C:0.30, G:0.35, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:29984456 original size:49 final size:49
Alignment explanation
Indices: 29984401--29984524 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 49
29984391 GTCGATACAG
*
29984401 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAAACTAATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAAACTAATGCCA
* * * * *** *
29984450 TGTCCCAGACCAGGTCTTAAACTGGCTCTCATTTATTGATGTTGATGCCA
1 TGTCCCAGA-CAGGTCTTACACTGACTCTCATATATCGAAACTAATGCCA
* *
29984500 TGTCCCAAATAGGTCTTACACTGAC
1 TGTCCCAGACAGGTCTTACACTGAC
29984525 ACACAACAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 22 0.36
50 39 0.64
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAAACTAATGCCA
Found at i:29987283 original size:11 final size:11
Alignment explanation
Indices: 29987267--29987291 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29987257 AAAAAAGTAG
29987267 CACTTAAATCC
1 CACTTAAATCC
29987278 CACTTAAATCC
1 CACTTAAATCC
29987289 CAC
1 CAC
29987292 AAAACCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (11 bp):
CACTTAAATCC
Found at i:29988285 original size:10 final size:10
Alignment explanation
Indices: 29988270--29988294 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29988260 TAGTACTATT
29988270 TAAGTTACTG
1 TAAGTTACTG
29988280 TAAGTTACTG
1 TAAGTTACTG
29988290 TAAGT
1 TAAGT
29988295 CACGTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (10 bp):
TAAGTTACTG
Found at i:29989857 original size:26 final size:26
Alignment explanation
Indices: 29989828--29989885 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
29989818 AGGAAAAGTA
* **
29989828 AATAATAGTATATATATGTTAAGTGT
1 AATAATAGTATAGATATAATAAGTGT
* * *
29989854 AATAAAATTTTAGATATAATAAGTGT
1 AATAATAGTATAGATATAATAAGTGT
29989880 AATAAT
1 AATAAT
29989886 TAATGGTTAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (26 bp):
AATAATAGTATAGATATAATAAGTGT
Found at i:29996197 original size:32 final size:31
Alignment explanation
Indices: 29996124--29996198 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
29996114 CTATTTTCTT
* * *
29996124 ATTTTAGTCACTTTTATTAAATAAATTGTTA
1 ATTTTAGTCACTCTTATTAAATAAATTATCA
* *
29996155 ATTTTAGTCACTCTTATTAATTAATTTATCA
1 ATTTTAGTCACTCTTATTAAATAAATTATCA
*
29996186 GCTTTTAGTCACT
1 -ATTTTAGTCACT
29996199 TTACAGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 26 0.70
32 11 0.30
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.51
Consensus pattern (31 bp):
ATTTTAGTCACTCTTATTAAATAAATTATCA
Found at i:30005426 original size:13 final size:13
Alignment explanation
Indices: 30005408--30005432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30005398 TCGGCAGGGG
30005408 CACACCCGTGTGA
1 CACACCCGTGTGA
30005421 CACACCCGTGTG
1 CACACCCGTGTG
30005433 CGATTACTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
CACACCCGTGTGA
Found at i:30017856 original size:43 final size:43
Alignment explanation
Indices: 30017782--30017865 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
30017772 CATCAGTGTC
* * * *
30017782 ATATTTGATTTCGTGTAAGACCCTGTTTGGGATAGTGGCATCG
1 ATATTTGATTACATGTAAGACCCTGTATGGGACAGTGGCATCG
*
30017825 ATATTTGATTACATGTAAGACCAC-GTATGGGACATTGGCAT
1 ATATTTGATTACATGTAAGACC-CTGTATGGGACAGTGGCAT
30017866 TGTATGAGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (43 bp):
ATATTTGATTACATGTAAGACCCTGTATGGGACAGTGGCATCG
Found at i:30021992 original size:46 final size:45
Alignment explanation
Indices: 30021942--30022117 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
30021932 TGGTTGAGCA
*
30021942 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
30021988 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
30022035 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
30022081 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30022118 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:30022098 original size:93 final size:93
Alignment explanation
Indices: 30021939--30022109 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
30021929 GGATGGTTGA
* *
30021939 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30022004 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
30022032 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30022097 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
30022110 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:30044662 original size:475 final size:474
Alignment explanation
Indices: 30043772--30044715 Score: 1638
Period size: 475 Copynumber: 2.0 Consensus size: 474
30043762 AAACAACAAA
30043772 ATCAACTGGGAATATAAATTTGTCAATTTTAACGAGTACGTCTTCAATGATACCCCTAGGAAATC
1 ATCAACTGGGAATATAAATTTGTCAATTTTAACGAGTACGTCTTCAATGATACCCCTAGGAAATC
30043837 TGACAGTTTTATCTGCTAATTGAATACTCATCCTAGTTTGTTTGGGTTTCCCTAGACCTAGTTGC
66 TGACAGTTTTATCTGCTAATTGAATACTCATCCTAGTTTGTTTGGGTTTCCCTAGACCTAGTTGC
* *
30043902 TTAAACAATTTGTAAGGCATAACATTGATACTAGTCTCTAGATCAGCCAACGCATTATTAACATC
131 TTAAACAATTTGTAAGGCATAACATTGATACTAGCCCCTAGATCAGCCAACGCATTATTAACATC
*
30043967 TAAACTACCAATTAAACAAGGAATCATAAAACTCCCTAGATCTTTTAGTTTGTTGGTTAGCTTAT
196 TAAACTACCAATTAAACAAGGAATCATAAAACTCCCTAGATCTTTTAGTTTGTTGGGTAGCTTAT
*
30044032 TCAGAAGAATGGCTGAGCAAACCGCGTTCAGCTCCACATGCGACCTTTCATCTAACTTTCATTTA
261 TCAGAAGAATGGCTGAGCAAACCGCGTTCAGCTCCACATGCAACCTTTCATCTAACTTTCATTTA
* * *
30044097 TTTGCTAAGAGTTCCTTTAAATATTTGACTGCATTTGGAATTTGCGAAAGTGCTTCAATAAACGG
326 TTTGCTAAGAGCTCCTTTAAAAATTTGACTGCATTT-GAATCTGCGAAAGTGCTTCAATAAACGG
30044162 TAGGTTAATATGTAGTTTCTTTAAAAGTTTAAAGAATTTACCAAATTGTTCGTCTGAGCGGTCTT
390 TAGGTTAATATGTAGTTTCTTTAAAAGTTTAAAGAATTTACCAAATTGTTCGTCTGAGCGGTCTT
30044227 TCCTTGTCGCATTGAGCTTT
455 TCCTTGTCGCATTGAGCTTT
* *
30044247 ATCAACTGGGAATATAAATTTGTGAATTTTAACGAGTATGTCTTCAATGATACCCCTAGGAAATC
1 ATCAACTGGGAATATAAATTTGTCAATTTTAACGAGTACGTCTTCAATGATACCCCTAGGAAATC
* * *
30044312 TGACAGTTTTATCTGCTAATTGAATGCTTATCCTAGTTTGTTTTGGTTTCCCTAGACCTAGTTGC
66 TGACAGTTTTATCTGCTAATTGAATACTCATCCTAGTTTGTTTGGGTTTCCCTAGACCTAGTTGC
* *
30044377 TTAAACAATTTGTAAGGCATAACATTGATACTAGCCCCTAGATCAGCCAACTCATTATTAAGATC
131 TTAAACAATTTGTAAGGCATAACATTGATACTAGCCCCTAGATCAGCCAACGCATTATTAACATC
*
30044442 TAAACTACCAATTAAACAAGGAATCATAAAACTCCCTGGATCTTTTAGTTTGTTGGGTAGCTTAT
196 TAAACTACCAATTAAACAAGGAATCATAAAACTCCCTAGATCTTTTAGTTTGTTGGGTAGCTTAT
* * * **
30044507 TCTGAAGAATGGCTGAGCAAACCGTGTTCAGTTCCACATGCAACCTTTCATCTAACTTTTGTTTA
261 TCAGAAGAATGGCTGAGCAAACCGCGTTCAGCTCCACATGCAACCTTTCATCTAACTTTCATTTA
*
30044572 TTTGCTAGGAGCTCCTTTAAAAATTTGACTGCATTCT-ACATCTGCGAAAGTGCTTCAATAAACG
326 TTTGCTAAGAGCTCCTTTAAAAATTTGACTGCATT-TGA-ATCTGCGAAAGTGCTTCAATAAACG
* *
30044636 GTAGGTTAATATGTAGTTTCTTTAAAAGTTTAAGGAATTTACCAAATTGTTCGTCTGAGCGGTTT
389 GTAGGTTAATATGTAGTTTCTTTAAAAGTTTAAAGAATTTACCAAATTGTTCGTCTGAGCGGTCT
*
30044701 TTCCTTGTCGTATTG
454 TTCCTTGTCGCATTG
30044716 GGGTATGGCA
Statistics
Matches: 443, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
474 1 0.00
475 441 1.00
476 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (474 bp):
ATCAACTGGGAATATAAATTTGTCAATTTTAACGAGTACGTCTTCAATGATACCCCTAGGAAATC
TGACAGTTTTATCTGCTAATTGAATACTCATCCTAGTTTGTTTGGGTTTCCCTAGACCTAGTTGC
TTAAACAATTTGTAAGGCATAACATTGATACTAGCCCCTAGATCAGCCAACGCATTATTAACATC
TAAACTACCAATTAAACAAGGAATCATAAAACTCCCTAGATCTTTTAGTTTGTTGGGTAGCTTAT
TCAGAAGAATGGCTGAGCAAACCGCGTTCAGCTCCACATGCAACCTTTCATCTAACTTTCATTTA
TTTGCTAAGAGCTCCTTTAAAAATTTGACTGCATTTGAATCTGCGAAAGTGCTTCAATAAACGGT
AGGTTAATATGTAGTTTCTTTAAAAGTTTAAAGAATTTACCAAATTGTTCGTCTGAGCGGTCTTT
CCTTGTCGCATTGAGCTTT
Found at i:30053953 original size:43 final size:43
Alignment explanation
Indices: 30053840--30053945 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 43
30053830 GATCGAGATG
* * *
30053840 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTTTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCATGTGA
* *
30053883 TGATTTTCGTGTAAGACCATGTCTGGGACATTGGCATCAATGTGA
1 TGA-TTACATGTAAGACCATGTCTGGGACATTGGCATC-ATGTGA
30053928 -GATTACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
30053946 ATATGGGATA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 17 0.31
44 34 0.63
45 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCATGTGA
Found at i:30054642 original size:62 final size:62
Alignment explanation
Indices: 30054500--30054624 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
30054490 ATTTATATTA
*
30054500 TAATATATGTAAATGCTTAATATGTGCTTATTCAATAAGATAAGTTTAATATCATACAAGCT
1 TAATATATGTAAATGCTTAATATGTGCTTATTCAATAAGATAACTTTAATATCATACAAGCT
30054562 TAATATATGTAAATGCTTAATATGTGCTTATTCAATAAGATAACTTTAATATCATACAAGCT
1 TAATATATGTAAATGCTTAATATGTGCTTATTCAATAAGATAACTTTAATATCATACAAGCT
30054624 T
1 T
30054625 GCTAAGCTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.39
Consensus pattern (62 bp):
TAATATATGTAAATGCTTAATATGTGCTTATTCAATAAGATAACTTTAATATCATACAAGCT
Found at i:30056035 original size:28 final size:28
Alignment explanation
Indices: 30056003--30056134 Score: 167
Period size: 28 Copynumber: 4.8 Consensus size: 28
30055993 TATGGGGTCG
30056003 GCCACAAAGGCTTATTCTTTCATAGTTT
1 GCCACAAAGGCTTATTCTTTCATAGTTT
* *
30056031 GCCACAAAGGCTTATTCTTTCGTAATTT
1 GCCACAAAGGCTTATTCTTTCATAGTTT
* *
30056059 TCCACAAAGGCTTATTCTTT-TTAGTTT
1 GCCACAAAGGCTTATTCTTTCATAGTTT
** * *
30056086 GCCATTAAGACTTATTCTTTCATAGTTC
1 GCCACAAAGGCTTATTCTTTCATAGTTT
* *
30056114 GTCACAAATGCTTATTCTTTC
1 GCCACAAAGGCTTATTCTTTC
30056135 CTAATGTGTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 21 0.24
28 66 0.76
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.42
Consensus pattern (28 bp):
GCCACAAAGGCTTATTCTTTCATAGTTT
Found at i:30056104 original size:55 final size:57
Alignment explanation
Indices: 30056004--30056134 Score: 169
Period size: 55 Copynumber: 2.4 Consensus size: 57
30055994 ATGGGGTCGG
* * *
30056004 CCACAAAGGCTTATTCTTTCATAGTTTGCCACAAAGGCTTATTCTTTCGTAATT-TT
1 CCACAAAGGCTTATTCTTTCATAGTTTGCCACAAAGACTTATTCTTTCATAATTCGT
* ** *
30056060 CCACAAAGGCTTATTCTTT-TTAGTTTGCCATTAAGACTTATTCTTTCATAGTTCGT
1 CCACAAAGGCTTATTCTTTCATAGTTTGCCACAAAGACTTATTCTTTCATAATTCGT
*
30056116 -CACAAATGCTTATTCTTTC
1 CCACAAAGGCTTATTCTTTC
30056135 CTAATGTGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
55 45 0.69
56 20 0.31
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.43
Consensus pattern (57 bp):
CCACAAAGGCTTATTCTTTCATAGTTTGCCACAAAGACTTATTCTTTCATAATTCGT
Found at i:30057429 original size:179 final size:179
Alignment explanation
Indices: 30057118--30057470 Score: 539
Period size: 179 Copynumber: 2.0 Consensus size: 179
30057108 TACCCTGATT
* * * * *
30057118 TACATCTAGTAGGTTCCTAACTAGCTTACTTTATAACTTAACTTGTATAGTTCTAAAGATAAAAA
1 TACATCTAGTAGGTTCCTAACCAGCTTACCTTATAACTTAACTTGCACAGTGCTAAAGATAAAAA
* *
30057183 AGGCGCACTACTCCTCAAGAGTGAACTCATTCCACAATATCTTTTTACTTGTCTAACATCCTACT
66 AGGCGCACTACTCATCAAGAGTGAACTCATTCCACAATACCTTTTTACTTGTCTAACATCCTACT
* * *
30057248 CCAAAAAACATTGAAATCTAATATCAAACCACCATTATCTTACATCTAG
131 CCAAAAAACATGGAAATATAATATCAAACCACCATTATCATACATCTAG
30057297 TACATCTAGTAGGTTCCTAACCAGCTTACCTTATAACTTAACTTGCACAGTGCTAAAGATAAAAA
1 TACATCTAGTAGGTTCCTAACCAGCTTACCTTATAACTTAACTTGCACAGTGCTAAAGATAAAAA
* * * *
30057362 ATGG-GCACTAAC-CATCAGGCGTGAACTCATTCCACAATACCTTTTTACTTGTCTGACATCTTA
66 A-GGCGCACT-ACTCATCAAGAGTGAACTCATTCCACAATACCTTTTTACTTGTCTAACATCCTA
*
30057425 CTCCAAAAAACATGGAAATATGATATCAAACCACCATTATCATACA
129 CTCCAAAAAACATGGAAATATAATATCAAACCACCATTATCATACA
30057471 CATACATAAT
Statistics
Matches: 157, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
179 153 0.97
180 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (179 bp):
TACATCTAGTAGGTTCCTAACCAGCTTACCTTATAACTTAACTTGCACAGTGCTAAAGATAAAAA
AGGCGCACTACTCATCAAGAGTGAACTCATTCCACAATACCTTTTTACTTGTCTAACATCCTACT
CCAAAAAACATGGAAATATAATATCAAACCACCATTATCATACATCTAG
Found at i:30069285 original size:43 final size:43
Alignment explanation
Indices: 30069237--30069351 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
30069227 TGAGATTACA
* *
30069237 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATT-TCG
30069280 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
*
30069323 TGTAAGACCATGTCTGGAACATTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
30069352 AATATGAGAT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
42 1 0.01
43 64 0.96
44 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
Found at i:30069370 original size:43 final size:44
Alignment explanation
Indices: 30069226--30069392 Score: 161
Period size: 43 Copynumber: 3.9 Consensus size: 44
30069216 GATTGTTGAG
**
30069226 ATGAGATTA-CATGTAAGACCATGTCTGGGACATTGGCAT-TGT
1 ATGAGATTAGCATGTAAGACCATGTCTGGGACATTGGCATCAAT
* **
30069268 ATTGTGATTATG--TGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGAGATTA-GCATGTAAGACCATGTCTGGGACATTGGCATCAAT
* * *
30069312 AT-ATGATT-TCGTGTAAGACCATGTCTGGAACATTGGCATCAAT
1 ATGA-GATTAGCATGTAAGACCATGTCTGGGACATTGGCATCAAT
* *
30069355 ATGAGA-TAGCATGTAAGACCATTTCTGGGATA-TGGCAT
1 ATGAGATTAGCATGTAAGACCATGTCTGGGACATTGGCAT
30069393 TTTATGAGCT
Statistics
Matches: 103, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 8 0.08
43 92 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (44 bp):
ATGAGATTAGCATGTAAGACCATGTCTGGGACATTGGCATCAAT
Found at i:30071993 original size:43 final size:42
Alignment explanation
Indices: 30071882--30072042 Score: 137
Period size: 44 Copynumber: 3.8 Consensus size: 42
30071872 AAGGCGAACA
* * * ** *
30071882 TCCCAGACGTGGTCTTACATGTAATCAAATATTGATGCCTCTA
1 TCCCAGACATGGTCTTACACGAAATCAAATA-TGATGCCAATG
* * * *
30071925 TCCCCA-ACAGGGTCTTATATGAAATCAAATATGATGCCGATG
1 T-CCCAGACATGGTCTTACACGAAATCAAATATGATGCCAATG
* *
30071967 TCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAA--TCAAATATGATGCCAATG
* *
30072011 TCCCAGACGTGGTCTTACACGAAATCACATAT
1 TCCCAGACATGGTCTTACACGAAATCAAATAT
30072043 CGGAATCCTA
Statistics
Matches: 96, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
41 9 0.09
42 21 0.22
43 28 0.29
44 32 0.33
45 6 0.06
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAAATATGATGCCAATG
Found at i:30074971 original size:42 final size:42
Alignment explanation
Indices: 30074908--30075060 Score: 198
Period size: 42 Copynumber: 3.6 Consensus size: 42
30074898 TGAGATGCCA
* * * * *
30074908 ATGCCATGTCCCAGATGTGGTCTTACATGAGATCTCACATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
30074950 ATGCCATATCCCAGATATGGTCTTATACGACATCTCATTTCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
30074992 ATGCCATGTCCCAGATGTGGTCTTACACGAAATCTCATATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
30075034 AGGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
30075061 TGATAACACA
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 95 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:30075079 original size:84 final size:84
Alignment explanation
Indices: 30074908--30075086 Score: 234
Period size: 84 Copynumber: 2.1 Consensus size: 84
30074898 TGAGATGCCA
* * * *
30074908 ATGCCATGTCCCAGATGTGGTCTTACATGAGATCTCACATCGATGCCATATCCCAGATATGGTCT
1 ATGCCATGTCCCAGATGTGGTCTTACACGAAATCTCACATCAAGGCCATATCCCAGATATGGTCT
* * * *
30074973 TATACGACATCTCATTTCG
66 TACACGACAACACATCTCG
*
30074992 ATGCCATGTCCCAGATGTGGTCTTACACGAAATCTCATATCAAGGCCATATCCCAGATATGGTCT
1 ATGCCATGTCCCAGATGTGGTCTTACACGAAATCTCACATCAAGGCCATATCCCAGATATGGTCT
* *
30075057 TACATGATAACACATACT-G
66 TACACGACAACACAT-CTCG
30075076 ATGCCGATGTC
1 ATGCC-ATGTC
30075087 ATATCCCAGA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
84 76 0.93
85 6 0.07
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (84 bp):
ATGCCATGTCCCAGATGTGGTCTTACACGAAATCTCACATCAAGGCCATATCCCAGATATGGTCT
TACACGACAACACATCTCG
Found at i:30089919 original size:44 final size:44
Alignment explanation
Indices: 30089756--30089930 Score: 201
Period size: 44 Copynumber: 3.9 Consensus size: 44
30089746 ATGGTTGAGC
*
30089756 ATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
30089800 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGA
30089849 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
30089893 ACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30089931 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 18
0.79 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 38 0.35
45 2 0.02
46 31 0.28
47 32 0.29
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:30092871 original size:15 final size:15
Alignment explanation
Indices: 30092851--30092919 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
30092841 GTATCTTGGG
30092851 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
30092866 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
30092881 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
30092896 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
30092911 TTTCTTTAT
1 TTTCTTTAT
30092920 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:30092920 original size:30 final size:30
Alignment explanation
Indices: 30092842--30092929 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
30092832 CATAGTATCG
* * * *
30092842 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
30092872 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
30092902 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
30092930 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:30095361 original size:46 final size:46
Alignment explanation
Indices: 30095311--30095486 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
30095301 TGGTTGAGCA
30095311 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30095357 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
30095402 CATCCGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30095450 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30095487 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30095467 original size:93 final size:93
Alignment explanation
Indices: 30095308--30095479 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
30095298 GGATGGTTGA
* * *
30095308 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30095373 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30095401 GCATCCGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30095466 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30095480 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30106103 original size:15 final size:13
Alignment explanation
Indices: 30106071--30106095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30106061 ACAAACGATA
30106071 AAATTTTCACACG
1 AAATTTTCACACG
30106084 AAATTTTCACAC
1 AAATTTTCACAC
30106096 ATATAATTAA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:30110308 original size:42 final size:42
Alignment explanation
Indices: 30110249--30110329 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
30110239 TAGAACCTCA
*
30110249 TAAGAGCTAAATAGAAACCCATAAGGGTTGAACAAAAGCCCG
1 TAAGAGCTAAATAGAAACCCATAAGGGTTAAACAAAAGCCCG
* * *
30110291 TAAGAGCTGAATGGAAACCCATAAGGGTTAAACATAAGC
1 TAAGAGCTAAATAGAAACCCATAAGGGTTAAACAAAAGC
30110330 TAAAAAAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.16
Consensus pattern (42 bp):
TAAGAGCTAAATAGAAACCCATAAGGGTTAAACAAAAGCCCG
Found at i:30110315 original size:21 final size:21
Alignment explanation
Indices: 30110233--30110315 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
30110223 CAGCCCAGAG
30110233 GCTGAATAG-AACCTCATAAGA
1 GCTGAATAGAAACC-CATAAGA
* *
30110254 GCTAAATAGAAACCCATAAGG
1 GCTGAATAGAAACCCATAAGA
* * *
30110275 GTTGAACA-AAAGCCCGTAAGA
1 GCTGAATAGAAA-CCCATAAGA
*
30110296 GCTGAATGGAAACCCATAAG
1 GCTGAATAGAAACCCATAAG
30110316 GGTTAAACAT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.06
21 38 0.79
22 7 0.15
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (21 bp):
GCTGAATAGAAACCCATAAGA
Found at i:30111865 original size:43 final size:43
Alignment explanation
Indices: 30111708--30111866 Score: 135
Period size: 45 Copynumber: 3.7 Consensus size: 43
30111698 TATGTGTTCT
* ** *
30111708 CGTGTAATACCACGTCTGGGACGTTGGCATCGATATATGTGGTTA
1 CGTGTAAGACCATATCTGGGACGTTGGCATCG--ATATGTGATTA
* * * * *
30111753 CGTGTAAGACCATGTCTGGGACATCGGTATCG-TATTTGATT-
1 CGTGTAAGACCATATCTGGGACGTTGGCATCGATATGTGATTA
* * * *
30111794 TGTGTAAGACCCTATCTAGGATAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCATATCTGGGA-CGTTGGCATCGATATGTGATTA
* *
30111837 CATGTAAGACCAAATCTGGGACGTTGGCAT
1 CGTGTAAGACCATATCTGGGACGTTGGCAT
30111867 TGTACGATAT
Statistics
Matches: 88, Mismatches: 22, Indels: 10
0.73 0.18 0.08
Matches are distributed among these distances:
41 23 0.26
42 16 0.18
43 22 0.25
45 27 0.31
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATATCTGGGACGTTGGCATCGATATGTGATTA
Found at i:30114801 original size:21 final size:21
Alignment explanation
Indices: 30114775--30114814 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
30114765 ACTAAAAACG
30114775 TATTAATTT-CACTTTAATTTA
1 TATTAATTTCCAC-TTAATTTA
30114796 TATTAATTTCCACTTAATT
1 TATTAATTTCCACTTAATT
30114815 ACAAAATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTAATTTCCACTTAATTTA
Found at i:30117856 original size:23 final size:25
Alignment explanation
Indices: 30117810--30117863 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
30117800 ACTTTTCATT
* *
30117810 ATTTTTAAAGACTTGGATATTTTTA
1 ATTTTTAAAGACTTAGATACTTTTA
30117835 ATTTTT-AAG-CTTAGATACTTTTA
1 ATTTTTAAAGACTTAGATACTTTTA
30117858 ATTTTT
1 ATTTTT
30117864 TAGGTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 18 0.67
24 3 0.11
25 6 0.22
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.56
Consensus pattern (25 bp):
ATTTTTAAAGACTTAGATACTTTTA
Found at i:30120648 original size:27 final size:27
Alignment explanation
Indices: 30120618--30120795 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30120608 ATATTGAGTC
* * * *
30120618 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30120645 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30120672 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30120700 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30120727 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30120754 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30120781 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30120796 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30120757 original size:82 final size:81
Alignment explanation
Indices: 30120639--30120794 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30120629 TGCTATATAA
* *
30120639 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30120704 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30120721 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30120785 CACTTAGTGC
65 CACTTAGTGC
30120795 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30123513 original size:26 final size:26
Alignment explanation
Indices: 30123465--30123514 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
30123455 TCAAAATTAA
* * * *
30123465 ACCTAGGGTTATAACGGTCATTTTGC
1 ACCTAGGGGTAAAACGATAATTTTGC
30123491 ACCTAGGGGTAAAACGATAATTTT
1 ACCTAGGGGTAAAACGATAATTTT
30123515 CATACTTAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (26 bp):
ACCTAGGGGTAAAACGATAATTTTGC
Done.