Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 113 of 207
Found at i:33951534 original size:51 final size:51
Alignment explanation
Indices: 33951438--33951627 Score: 154
Period size: 51 Copynumber: 3.7 Consensus size: 51
33951428 GATACCGGTT
* *
33951438 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAGCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAGAACTATCCGATA
** * * * *
33951489 CATGTA-TCAGTCTGCACATAGTACTACACACGTTATC-GAAGCTATCCGGTA
1 CACATAGT-AGCCTGCACATAGTACTACACACGTGACCAGAA-CTATCCGATA
* * * ** * ** *
33951540 CGCATAGTAGCCTGCACATAGTACTACACATGCG-CCCTATC-ATTTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAGAACTA-TCCGATA
* *
33951590 CACGTAGTAGCCTGCACATAGTACTACACATGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA
33951628 TCACTTTCAC
Statistics
Matches: 109, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
49 1 0.01
50 41 0.38
51 66 0.61
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAGAACTATCCGATA
Found at i:33960702 original size:17 final size:16
Alignment explanation
Indices: 33960666--33960718 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
33960656 CTAAGAGAGT
33960666 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
*
33960681 -AAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
*
33960697 TGAGATGAG-GGATAA
1 TGAGATGAGAGGATGA
33960712 TG-GATGA
1 TGAGATGA
33960719 TGAGAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 8 0.25
15 11 0.34
16 6 0.19
17 7 0.22
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:33985134 original size:64 final size:64
Alignment explanation
Indices: 33985033--33985158 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
33985023 AGGAAAGACC
* *
33985033 ATTTTCTTTTGCCGTTCATCAATCAAATGATAGATAGATTAGCAAGAAAAGTCTTTTATTGCTA
1 ATTTTCTTTTGCCATTCATCAATCAAATGATAGATAGATTAGCAAGAAAAGCCTTTTATTGCTA
* *
33985097 ATTTTCTTTTGCCATTCATCGATCAAATGATAGATAGATTAGCGAGAAAAGCCTTTTATTGC
1 ATTTTCTTTTGCCATTCATCAATCAAATGATAGATAGATTAGCAAGAAAAGCCTTTTATTGC
33985159 ATTTTAGATG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (64 bp):
ATTTTCTTTTGCCATTCATCAATCAAATGATAGATAGATTAGCAAGAAAAGCCTTTTATTGCTA
Found at i:33993148 original size:483 final size:483
Alignment explanation
Indices: 33992242--33993211 Score: 1778
Period size: 483 Copynumber: 2.0 Consensus size: 483
33992232 AATAGGCGTT
*
33992242 ATTTCGAAGAATGCAAATTGAGATATGGATCGTGCTTTAAATGTGGTTCTTATGACCATTTTCTT
1 ATTTCGAAGAATGCAAATTGAGAGATGGATCGTGCTTTAAATGTGGTTCTTATGACCATTTTCTT
* *
33992307 CGAGACTGCCTTGAAAGATCTGATAGGGAGAAAGCTCAGAACAGTCGTTCGAGTAACACGACTGC
66 CGAGACTACCTTGAAAGATCTGATAGGGAGAAAGCTCAGAACACTCGTTCGAGTAACACGACTGC
*
33992372 GAGAGGGAGACCATCCAGAAATAGTGGAAATACGGGTAATAGTCGATGTGGAATGAAATATTCTA
131 GAGAGGGAGACCATCCAGAAATAGTGGAAATACGGGTAATAGTCGATGTGGAACGAAATATTCTA
33992437 CGGTTAGATCTGAGGCTCGGGCATATGCAATTCGAGCTCGTGAGAAAGCTTCAGCACCTGATGTG
196 CGGTTAGATCTGAGGCTCGGGCATATGCAATTCGAGCTCGTGAGAAAGCTTCAGCACCTGATGTG
* * * *
33992502 ATTATTGGTACATTTTCTATCTTTGATACTAATGTTAATGCTTTGATTGACTCGAGGTCAACACC
261 ATTACTGGTACATTTTCTATCTTTGATACTAATGTTAATGATCTGATTGACCCGAGGTCAACACC
33992567 CTCATATATATGCACAACCTTAGTGTCAGATAAGAAAATACCTTATGAGTCAACTGAATTTGTGA
326 CTCATATATATGCACAACCTTAGTGTCAGATAAGAAAATACCTTATGAGTCAACTGAATTTGTGA
*
33992632 TTAAAGTAACGAATCCTTTAGACCAGTATGTGTTAGTTGATAAAGTTTGTAGAAACTGTCTTTTG
391 TTAAAGTAACGAATCATTTAGACCAGTATGTGTTAGTTGATAAAGTTTGTAGAAACTGTCTTTTG
* *
33992697 ATGATTCAGGATTGCAACTTTCTTGCTG
456 ATGATTCAGGATTACAACTTTCTTGCAG
33992725 ATTTCGAAGAATGCAAATTGAGAGATGGATCGTGCTTTAAATGTGGTTCTTATGACCATTTTCTT
1 ATTTCGAAGAATGCAAATTGAGAGATGGATCGTGCTTTAAATGTGGTTCTTATGACCATTTTCTT
* *
33992790 CGAGACTACCTTGAAAGATCTGATAGGGAGAAAGCTCAGAACACTCGTTCGAGTAACACGGCTGG
66 CGAGACTACCTTGAAAGATCTGATAGGGAGAAAGCTCAGAACACTCGTTCGAGTAACACGACTGC
33992855 GAGAGGGAGACCATCCAGAAATAGTGGAAATACGGGTAATAGTCGATGTGGAACGAAATATTCTA
131 GAGAGGGAGACCATCCAGAAATAGTGGAAATACGGGTAATAGTCGATGTGGAACGAAATATTCTA
*
33992920 CGGTTAGATCTGAGGCTCGGGCATATGCAATTCGAGCTCGTGAGGAAGCTTCAGCACCTGATGTG
196 CGGTTAGATCTGAGGCTCGGGCATATGCAATTCGAGCTCGTGAGAAAGCTTCAGCACCTGATGTG
33992985 ATTACTGGTACATTTTCTATCTTTGATACTAATGTTAATGATCTGATTGACCCGAGGTCAACACC
261 ATTACTGGTACATTTTCTATCTTTGATACTAATGTTAATGATCTGATTGACCCGAGGTCAACACC
* *
33993050 GTCATATATATGCACGACCTTAGTGTCAGATAAGAAAATACCTTATGAGTCAACTGAATTTGTGA
326 CTCATATATATGCACAACCTTAGTGTCAGATAAGAAAATACCTTATGAGTCAACTGAATTTGTGA
* *
33993115 TTAAAGTAACGAATCATTTAGGCCAGTATGTGTTAGTTGGTAAAGTTTGTAGAAACTGTCTTTTG
391 TTAAAGTAACGAATCATTTAGACCAGTATGTGTTAGTTGATAAAGTTTGTAGAAACTGTCTTTTG
33993180 ATGATTCAGGATTACAACTTTCTTGCAG
456 ATGATTCAGGATTACAACTTTCTTGCAG
33993208 ATTT
1 ATTT
33993212 GATGCTATTA
Statistics
Matches: 469, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
483 469 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (483 bp):
ATTTCGAAGAATGCAAATTGAGAGATGGATCGTGCTTTAAATGTGGTTCTTATGACCATTTTCTT
CGAGACTACCTTGAAAGATCTGATAGGGAGAAAGCTCAGAACACTCGTTCGAGTAACACGACTGC
GAGAGGGAGACCATCCAGAAATAGTGGAAATACGGGTAATAGTCGATGTGGAACGAAATATTCTA
CGGTTAGATCTGAGGCTCGGGCATATGCAATTCGAGCTCGTGAGAAAGCTTCAGCACCTGATGTG
ATTACTGGTACATTTTCTATCTTTGATACTAATGTTAATGATCTGATTGACCCGAGGTCAACACC
CTCATATATATGCACAACCTTAGTGTCAGATAAGAAAATACCTTATGAGTCAACTGAATTTGTGA
TTAAAGTAACGAATCATTTAGACCAGTATGTGTTAGTTGATAAAGTTTGTAGAAACTGTCTTTTG
ATGATTCAGGATTACAACTTTCTTGCAG
Found at i:34001401 original size:14 final size:14
Alignment explanation
Indices: 34001384--34001416 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
34001374 TAAATATTGC
*
34001384 CCATTAAAAATCAT
1 CCATGAAAAATCAT
34001398 CCATGAAAAATCAT
1 CCATGAAAAATCAT
34001412 CCATG
1 CCATG
34001417 CACCGTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (14 bp):
CCATGAAAAATCAT
Found at i:34016288 original size:55 final size:54
Alignment explanation
Indices: 34016192--34016297 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 54
34016182 ACCTTTGAAC
*
34016192 TAGGGACACACGGTCATGTCCCAACCCATGTCCTCACCCATGTAACTCTCTGAG
1 TAGGGACACACGGTCATGTCACAACCCATGTCCTCACCCATGTAACTCTCTGAG
* * * *
34016246 TAGGGTCACAGGGTCGTGTCACACACCCATGTGC-CACGCCATGTAACTCTCT
1 TAGGGACACACGGTCATGTCACA-ACCCATGTCCTCAC-CCATGTAACTCTCT
34016298 AAGTTGTCGC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 22 0.49
55 23 0.51
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.23
Consensus pattern (54 bp):
TAGGGACACACGGTCATGTCACAACCCATGTCCTCACCCATGTAACTCTCTGAG
Found at i:34032066 original size:19 final size:19
Alignment explanation
Indices: 34032042--34032173 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
34032032 AATTTTTGAG
34032042 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34032061 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
34032080 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34032099 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
34032118 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34032137 GATATATGAAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
34032158 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
34032174 AGATATGATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 87 0.83
21 18 0.17
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34032180 original size:22 final size:23
Alignment explanation
Indices: 34032112--34032196 Score: 78
Period size: 19 Copynumber: 4.0 Consensus size: 23
34032102 ATGCAATCCT
*
34032112 AGATATGA-TATGCAATCTT---
1 AGATATGATTATGTAATCTTAGA
*
34032131 AGATATGATATATGAAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
34032152 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
34032174 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
34032197 GATTTAATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
19 18 0.32
21 18 0.32
22 8 0.14
23 13 0.23
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:34032192 original size:23 final size:22
Alignment explanation
Indices: 34032152--34032196 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
34032142 ATGAAATCTT
34032152 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
34032174 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
34032197 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:34032206 original size:22 final size:23
Alignment explanation
Indices: 34032162--34032206 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34032152 AGATATGATA
*
34032162 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
34032185 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
34032207 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:34032838 original size:27 final size:25
Alignment explanation
Indices: 34032808--34032858 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
34032798 TGTACACATA
34032808 TATATTTTTTTTAAACGAATATTTTCC
1 TATA-TTTTTTT-AACGAATATTTTCC
*
34032835 TATATTTTTTTAATGAATATTTTC
1 TATATTTTTTTAACGAATATTTTC
34032859 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
26 7 0.30
27 4 0.17
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (25 bp):
TATATTTTTTTAACGAATATTTTCC
Found at i:34033638 original size:98 final size:98
Alignment explanation
Indices: 34033521--34033717 Score: 322
Period size: 98 Copynumber: 2.0 Consensus size: 98
34033511 TTAAAAATCA
* * * *
34033521 TAAAGGAAATATTCTGAGTTTGGGATTTTAAAGGTATTGTGCCCTAACGCATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGCATTGGGTGTGATTTC
* *
34033586 TTAAATCTTGGATTAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
* *
34033619 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGCATTGGGTGTGATTTC
34033684 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
34033717 T
1 T
34033718 TTTATTGTAC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGCATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
Found at i:34034401 original size:17 final size:17
Alignment explanation
Indices: 34034379--34034411 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34034369 ATGAATGAAA
34034379 AAATGCTAGGGAAATTG
1 AAATGCTAGGGAAATTG
*
34034396 AAATGCTATGGAAATT
1 AAATGCTAGGGAAATT
34034412 CTCAAAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (17 bp):
AAATGCTAGGGAAATTG
Found at i:34036887 original size:17 final size:19
Alignment explanation
Indices: 34036856--34036898 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
34036846 TTGTTTTTAC
34036856 TTTTCATTTGCATAT-T-T
1 TTTTCATTTGCATATGTGT
**
34036873 TTTTCATTTTTATATGTGT
1 TTTTCATTTGCATATGTGT
34036892 TTTTCAT
1 TTTTCAT
34036899 GCATTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 13 0.59
18 1 0.05
19 8 0.36
ACGTcount: A:0.16, C:0.09, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTCATTTGCATATGTGT
Found at i:34040071 original size:20 final size:20
Alignment explanation
Indices: 34040048--34040142 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
34040038 CATAACAAGA
34040048 GCACCGAAGTGCAAACAGGG
1 GCACCGAAGTGCAAACAGGG
* * *
34040068 GCA-CAAATGTACAAATAGGG
1 GCACCGAA-GTGCAAACAGGG
*
34040088 GCACCGTAGAATG--AACAGGG
1 GCACCG-A-AGTGCAAACAGGG
* * * *
34040108 ACATCGAAGTGCAAATAGAG
1 GCACCGAAGTGCAAACAGGG
34040128 GCACCGAAGTGCAAA
1 GCACCGAAGTGCAAA
34040143 TCCTGTACAA
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
18 3 0.05
19 4 0.07
20 44 0.80
21 1 0.02
22 2 0.04
23 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.29, T:0.11
Consensus pattern (20 bp):
GCACCGAAGTGCAAACAGGG
Found at i:34044426 original size:20 final size:20
Alignment explanation
Indices: 34044401--34044445 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
34044391 TAAATACACA
34044401 TAATTAAAATT-AGACACAAT
1 TAATT-AAATTAAGACACAAT
*
34044421 TAATTAAGTTAAGACACAAT
1 TAATTAAATTAAGACACAAT
34044441 TAATT
1 TAATT
34044446 TGATTGGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (20 bp):
TAATTAAATTAAGACACAAT
Found at i:34046577 original size:18 final size:18
Alignment explanation
Indices: 34046556--34046693 Score: 53
Period size: 18 Copynumber: 7.7 Consensus size: 18
34046546 TTTCAACATC
34046556 TTTTTCTTTTTTCAATTT
1 TTTTTCTTTTTTCAATTT
** *
34046574 TTTTTCTGAATCTCAA---
1 TTTTTCT-TTTTTCAATTT
34046590 -TT-TCTT-TTTCAATTT
1 TTTTTCTTTTTTCAATTT
34046605 TCTTTTCTTCATTTTC--TTT
1 T-TTTTCTT--TTTTCAATTT
* *
34046624 TTCTCTCATTTTTTCTATTT
1 TT-TTTC-TTTTTTCAATTT
*
34046644 CTTTTTC-TTTTGCAATTT
1 -TTTTTCTTTTTTCAATTT
*
34046662 CTTTTTC-TTTTTCACTTT
1 -TTTTTCTTTTTTCAATTT
34046680 CTTTTTCTTCTTTT
1 -TTTTTCTT-TTTT
34046694 TCATTTTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 32
0.68 0.08 0.24
Matches are distributed among these distances:
12 5 0.05
14 3 0.03
15 2 0.02
17 2 0.02
18 49 0.53
19 13 0.14
20 12 0.13
21 6 0.07
ACGTcount: A:0.10, C:0.18, G:0.01, T:0.70
Consensus pattern (18 bp):
TTTTTCTTTTTTCAATTT
Found at i:34046620 original size:14 final size:16
Alignment explanation
Indices: 34046601--34046635 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
34046591 TTCTTTTTCA
34046601 ATTTTC-TTTTCT-TC
1 ATTTTCTTTTTCTCTC
34046615 ATTTTCTTTTTCTCTC
1 ATTTTCTTTTTCTCTC
34046631 ATTTT
1 ATTTT
34046636 TTCTATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 6 0.32
16 7 0.37
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTCTTTTTCTCTC
Found at i:34046625 original size:15 final size:15
Alignment explanation
Indices: 34046584--34046635 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 15
34046574 TTTTTCTGAA
*
34046584 TCTCAATTTCTTTT-
1 TCTCATTTTCTTTTC
*
34046598 TC-AATTTTCTTTTC
1 TCTCATTTTCTTTTC
34046612 T-TCATTTTCTTTTTC
1 TCTCATTTTC-TTTTC
34046627 TCTCATTTT
1 TCTCATTTT
34046636 TTCTATTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 9 0.29
14 9 0.29
15 6 0.19
16 7 0.23
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTCATTTTCTTTTC
Found at i:34046700 original size:6 final size:6
Alignment explanation
Indices: 34046590--34046688 Score: 65
Period size: 6 Copynumber: 16.0 Consensus size: 6
34046580 TGAATCTCAA
* * ** *
34046590 TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTCT CAT-TT TTTCTA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCT-T TTTCTT TTTCTT
* ** **
34046641 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCAC TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
34046689 CTTTTTCATT
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
5 2 0.03
6 52 0.76
7 11 0.16
8 3 0.04
ACGTcount: A:0.08, C:0.19, G:0.01, T:0.72
Consensus pattern (6 bp):
TTTCTT
Found at i:34047593 original size:18 final size:18
Alignment explanation
Indices: 34047553--34047596 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34047543 ACTTCTTCTT
*
34047553 TTTTTTATACTTCGAAATT
1 TTTTTT-TACTTCGAAATC
* *
34047572 TTTTTTTACTTCGTACTC
1 TTTTTTTACTTCGAAATC
34047590 TTTTTTT
1 TTTTTTT
34047597 TTGTAATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTTTTACTTCGAAATC
Found at i:34047593 original size:20 final size:18
Alignment explanation
Indices: 34047549--34047598 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
34047539 TTTCACTTCT
34047549 TCTTTTTTTTATACTTCGA
1 TCTTTTTTTT-TACTTCGA
**
34047568 AATTTTTTTTTACTTCGTA
1 TCTTTTTTTTTACTTCG-A
34047587 CTCTTTTTTTTT
1 -TCTTTTTTTTT
34047599 GTAATTTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 7 0.28
19 9 0.36
20 9 0.36
ACGTcount: A:0.14, C:0.14, G:0.04, T:0.68
Consensus pattern (18 bp):
TCTTTTTTTTTACTTCGA
Found at i:34048833 original size:20 final size:20
Alignment explanation
Indices: 34048808--34048852 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
34048798 TAAATACACA
34048808 TAATTAAAATT-AGACACAAT
1 TAATT-AAATTAAGACACAAT
*
34048828 TAATTAAGTTAAGACACAAT
1 TAATTAAATTAAGACACAAT
34048848 TAATT
1 TAATT
34048853 TGATTGGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (20 bp):
TAATTAAATTAAGACACAAT
Found at i:34051232 original size:15 final size:15
Alignment explanation
Indices: 34051214--34051255 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
34051204 AGTTTCATTA
*
34051214 TCTACAGTTTCACAG
1 TCTATAGTTTCACAG
34051229 TCTATAGTTTCACAG
1 TCTATAGTTTCACAG
*
34051244 CCTATAGTTTCA
1 TCTATAGTTTCA
34051256 ATATATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (15 bp):
TCTATAGTTTCACAG
Found at i:34056105 original size:30 final size:30
Alignment explanation
Indices: 34056070--34056130 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
34056060 ATTATATAAG
34056070 TAAGATGATTTTATATGTGTATGAAATTGA
1 TAAGATGATTTTATATGTGTATGAAATTGA
*
34056100 TAAGATGATTTTATATGTGTATGAGATTGA
1 TAAGATGATTTTATATGTGTATGAAATTGA
34056130 T
1 T
34056131 TAAATTTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.44
Consensus pattern (30 bp):
TAAGATGATTTTATATGTGTATGAAATTGA
Found at i:34059758 original size:20 final size:19
Alignment explanation
Indices: 34059708--34059759 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
34059698 AATAGTTCTG
*
34059708 TCTCTTGATAAACAGTTGTA
1 TCTCTTG-TGAACAGTTGTA
*
34059728 TGT-TT-TGAACAGTTGTA
1 TCTCTTGTGAACAGTTGTA
34059745 TCTCTTGGTGAACAG
1 TCTCTT-GTGAACAG
34059760 ATTCATTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 13 0.50
18 2 0.08
19 2 0.08
20 9 0.35
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (19 bp):
TCTCTTGTGAACAGTTGTA
Found at i:34060353 original size:21 final size:20
Alignment explanation
Indices: 34060303--34060357 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
34060293 TTTTTGCTCT
*
34060303 GCTCTGCTTCTCTCGCTACA
1 GCTCTGCTTCCCTCGCTACA
* *
34060323 GCTTTCGCTTCCCTCGCTGCA
1 GCTCT-GCTTCCCTCGCTACA
34060344 GCTGCTGCTTCCCT
1 GCT-CTGCTTCCCT
34060358 TGCTTCCGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.05, C:0.42, G:0.18, T:0.35
Consensus pattern (20 bp):
GCTCTGCTTCCCTCGCTACA
Found at i:34065839 original size:9 final size:9
Alignment explanation
Indices: 34065825--34066134 Score: 263
Period size: 9 Copynumber: 35.3 Consensus size: 9
34065815 TACAAGGGTA
34065825 TAAGTTATG
1 TAAGTTATG
34065834 TAAGTTATG
1 TAAGTTATG
*
34065843 TACGTGTATG
1 TAAGT-TATG
34065853 TAAGTTATG
1 TAAGTTATG
*
34065862 TACGTGTA--
1 TAAGT-TATG
* *
34065870 TAAATTTTG
1 TAAGTTATG
34065879 TAAGTTATG
1 TAAGTTATG
*
34065888 TACGTGTA--
1 TAAGT-TATG
34065896 TAAGTTATG
1 TAAGTTATG
*
34065905 TAAGTTGTG
1 TAAGTTATG
*
34065914 T-A-TTAAG
1 TAAGTTATG
34065921 TAAGTTATG
1 TAAGTTATG
*
34065930 TAAGTTGTG
1 TAAGTTATG
34065939 T-A-TTATG
1 TAAGTTATG
34065946 TAAGTTATG
1 TAAGTTATG
*
34065955 TAAGTTATC
1 TAAGTTATG
* *
34065964 AAAGTAATG
1 TAAGTTATG
*
34065973 TATGTTATG
1 TAAGTTATG
34065982 TAAG-T-TG
1 TAAGTTATG
34065989 TAAGTTAT-
1 TAAGTTATG
*
34065997 TATGTATTATG
1 TAAG--TTATG
34066008 TAAGTTATG
1 TAAGTTATG
34066017 TAAGTTATG
1 TAAGTTATG
34066026 TAAGTTAAATG
1 TAAGTT--ATG
34066037 T-A-TTATG
1 TAAGTTATG
*
34066044 TAGGTTATG
1 TAAGTTATG
*
34066053 TAAGTTGTG
1 TAAGTTATG
* *
34066062 TAAGATATT
1 TAAGTTATG
34066071 TAAGTTATG
1 TAAGTTATG
* *
34066080 TGAGTTTTG
1 TAAGTTATG
34066089 T-A-TTATG
1 TAAGTTATG
34066096 TAAGTTATG
1 TAAGTTATG
34066105 TAAGTTATG
1 TAAGTTATG
*
34066114 TAGGTTATG
1 TAAGTTATG
*
34066123 TAAGTTTTG
1 TAAGTTATG
34066132 TAA
1 TAA
34066135 TGTACAAGTG
Statistics
Matches: 239, Mismatches: 40, Indels: 44
0.74 0.12 0.14
Matches are distributed among these distances:
7 27 0.11
8 18 0.08
9 170 0.71
10 17 0.07
11 7 0.03
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:34065869 original size:15 final size:17
Alignment explanation
Indices: 34065831--34065865 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
34065821 GGTATAAGTT
34065831 ATGTAAGTTATGTACGTG
1 ATGTAAGTTATGTACG-G
34065849 TATGTAAGTTATGTACG
1 -ATGTAAGTTATGTACG
34065866 TGTATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.40
Consensus pattern (17 bp):
ATGTAAGTTATGTACGG
Found at i:34065887 original size:26 final size:26
Alignment explanation
Indices: 34065849--34065915 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
34065839 TATGTACGTG
34065849 TATGTAAGTTATGTACGTGTATAAAT
1 TATGTAAGTTATGTACGTGTATAAAT
* *
34065875 TTTGTAAGTTATGTACGTGTATAAGT
1 TATGTAAGTTATGTACGTGTATAAAT
*
34065901 TATGTAAGTTGTGTA
1 TATGTAAGTTATGTA
34065916 TTAAGTAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (26 bp):
TATGTAAGTTATGTACGTGTATAAAT
Found at i:34065930 original size:25 final size:25
Alignment explanation
Indices: 34065896--34065960 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
34065886 TGTACGTGTA
34065896 TAAGTTATGTAAGTTGTGTATTAAG
1 TAAGTTATGTAAGTTGTGTATTAAG
*
34065921 TAAGTTATGTAAGTTGTGTATTATG
1 TAAGTTATGTAAGTTGTGTATTAAG
34065946 TAAGTTATGTAAGTT
1 TAAGTTATGTAAGTT
34065961 ATCAAAGTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTAAGTTGTGTATTAAG
Found at i:34066107 original size:43 final size:43
Alignment explanation
Indices: 34065829--34066133 Score: 257
Period size: 43 Copynumber: 7.0 Consensus size: 43
34065819 AGGGTATAAG
* * * **
34065829 TTATGTAAGTTATGTACGTGTATGTAAGTTATGTACGTGTATAAA
1 TTATGTAAGTTATGTAAGT-TATGTAAGTTATGTAAGT-TTTGTA
* * *
34065874 TTTTGTAAGTTATGTACGTGTA--TAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGT-TATGTAAGTTATGTAAGTTTTGTA
* * *
34065916 TTAAGTAAGTTATGTAAGTTGTGT-A-TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTTTGT-A
** * *
34065958 GTTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAGTTATTATGTA
1 -TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAG-T-TT-TGTA
*
34066003 TTATGTAAGTTATGTAAGTTATGTAAGTTAAATGT-A-TTATGTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTT--ATGTAAGTTTTGTA
* * * *
34066046 GGTTATGTAAGTTGTGTAAGATATTTAAGTTATGTGAGTTTTGTA
1 --TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTTTGTA
*
34066091 TTATGTAAGTTATGTAAGTTATGTAGGTTATGTAAGTTTTGTA
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTTTGTA
34066134 ATGTACAAGT
Statistics
Matches: 212, Mismatches: 31, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
41 15 0.07
42 21 0.10
43 84 0.40
44 28 0.13
45 57 0.27
46 3 0.01
47 1 0.00
48 3 0.01
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.46
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTTTGTA
Found at i:34069238 original size:39 final size:40
Alignment explanation
Indices: 34069170--34069250 Score: 119
Period size: 39 Copynumber: 2.0 Consensus size: 40
34069160 CCTAACCCAT
* *
34069170 AACCCTTAAATCCCCCTTAACCCTTAAAGCATAAACCCTA
1 AACCCCTAAATCCCCCTTAACCCCTAAAGCATAAACCCTA
* *
34069210 AACCCCTAAAT-CTCCTTAACCCCTAAAGCATAACCCCTA
1 AACCCCTAAATCCCCCTTAACCCCTAAAGCATAAACCCTA
34069249 AA
1 AA
34069251 AAAAATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 27 0.73
40 10 0.27
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.21
Consensus pattern (40 bp):
AACCCCTAAATCCCCCTTAACCCCTAAAGCATAAACCCTA
Found at i:34070030 original size:39 final size:40
Alignment explanation
Indices: 34069960--34070040 Score: 128
Period size: 39 Copynumber: 2.0 Consensus size: 40
34069950 CCTAACCCAC
*
34069960 AACCCCTAAATCCCCTTTAACCCTTAAAGCATAAACCCTA
1 AACCCCTAAATCCCCTTTAACCCCTAAAGCATAAACCCTA
* *
34070000 AACCCCTAAATCTCC-TTAACCCCTAAAGCATAACCCCTA
1 AACCCCTAAATCCCCTTTAACCCCTAAAGCATAAACCCTA
34070039 AA
1 AA
34070041 AGTTTTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 24 0.63
40 14 0.37
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.21
Consensus pattern (40 bp):
AACCCCTAAATCCCCTTTAACCCCTAAAGCATAAACCCTA
Found at i:34070051 original size:789 final size:789
Alignment explanation
Indices: 34068508--34070089 Score: 2833
Period size: 789 Copynumber: 2.0 Consensus size: 789
34068498 AGAGTGTATA
34068508 ATTAAAATTTTATCAACATTCGAATTTATAAATTATTGATATTATTCAAATAATGTATTACAATT
1 ATTAAAATTTTATCAACATTCGAATTTATAAATTATTGATATTATTCAAATAATGTATTACAATT
* *
34068573 TTAAATTTATGCTCTATTTTTAAGTTAAATTGGGTTGATGGAGATATGCCATTATAATTTCATTT
66 TTAAATTTATGCTATATTTTTAAGTTAAATTGGGTTGATGGAGATATGCCAGTATAATTTCATTT
34068638 CATGAAGCGCCCCTTAAAGAAAACGCCACAAATCTTACAAATTTTGAGGGTCAACTGAACTCGTC
131 CATGAAGCGCCCCTTAAAGAAAACGCCACAAATCTTACAAATTTTGAGGGTCAACTGAACTCGTC
*
34068703 AATGAAACGGCTCCGTTTTATTCAATTTTTCAAATATTATTTGCGGCGTTTTTCATAGAAACGCC
196 AATGAAACGGCTCCGTTTTATTCAATTTTTCAAATATTATTTGCGGCGTTTTCCATAGAAACGCC
34068768 ACTAAATATTCACTTTATTTAAAAGTATTTGCGGATATTATATCCATATTTGCGGCGTTTTAGTA
261 ACTAAATATTCACTTTATTTAAAAGTATTTGCGGATATTATATCCATATTTGCGGCGTTTTAGTA
*
34068833 AAAAACGCCACTAAAATTTCATATACAGAAAGAGACGGTGCTGTTTTATTAAAATATAAGTAAAT
326 AAAAACGCCACTAAAATTTCATATACAGAAAGAGACGGTGCCGTTTTATTAAAATATAAGTAAAT
* *
34068898 TTTCTAGCGTTTTCATAAAAAACGCCACAAATGATTAACTGAAACAACGCTGTTTTTCAGTTTAA
391 TTTCTAGCGTTTTCATAAAAAACGCCACAAATGATTAACTGAAACAACGCCGTTTTCCAGTTTAA
* *
34068963 AGATAATTTACGGCGTTTTTCGAAAAACGCCACAAATAAAAATTCAATTAATATTTGCTAAAATT
456 AGATAATTTACGGCGTTTTTCGAAAAACGCCACAAATAAAAATGCAATAAATATTTGCTAAAATT
34069028 TGAATAAATTTTATTATTTATTTATTTATCTATTGTATATTTAATTTAAATTTTACATAAATAAT
521 TGAATAAATTTTATTATTTATTTATTTATCTATTGTATATTTAATTTAAATTTTACATAAATAAT
34069093 TATTAAAATTTTAAGTAATATTTAAAAGTATTTAATATAAAAATTAATAACCCCTAATTCCCAAA
586 TATTAAAATTTTAAGTAATATTTAAAAGTATTTAATATAAAAATTAATAACCCCTAATTCCCAAA
* *
34069158 TTCCTAACCCATAACCCTTAAATCCCCCTTAACCCTTAAAGCATAAACCCTAAACCCCTAAATCT
651 TTCCTAACCCACAACCCCTAAATCCCCCTTAACCCTTAAAGCATAAACCCTAAACCCCTAAATCT
34069223 CCTTAACCCCTAAAGCATAACCCCTAAAAAAAATTATTATATAATTTTACTATTTAAATTTTACA
716 CCTTAACCCCTAAAGCATAACCCCTAAAAAAAATTATTATATAATTTTACTATTTAAATTTTACA
34069288 TAAATAAAT
781 TAAATAAAT
34069297 ATTAAAATTTTATCAACATTCGAATTTATAAATTATTGATATTATTCAAATAATGTATTACAATT
1 ATTAAAATTTTATCAACATTCGAATTTATAAATTATTGATATTATTCAAATAATGTATTACAATT
*
34069362 TTAAATTTATGCTATATTTTTAAGTTAAATTGGGTTGATGGAGATATGCCGGTATAATTTCATTT
66 TTAAATTTATGCTATATTTTTAAGTTAAATTGGGTTGATGGAGATATGCCAGTATAATTTCATTT
* * *
34069427 CATGAAGCGCCGCTTAAAGAAAACGCCACAAATTTTACAAATTTTGAGGGTCAATTGAACTCGTC
131 CATGAAGCGCCCCTTAAAGAAAACGCCACAAATCTTACAAATTTTGAGGGTCAACTGAACTCGTC
*
34069492 AATGAAACGGCTCCGTTTTATTCAATTTTTCAAATATTATTTGCGGCGTTTTCCATAGAAATGCC
196 AATGAAACGGCTCCGTTTTATTCAATTTTTCAAATATTATTTGCGGCGTTTTCCATAGAAACGCC
* * *
34069557 ACTAAATATTTACTTTATTTATAAGTATTTGCGGATATTGTATCCATATTTGCGGCGTTTTAGTA
261 ACTAAATATTCACTTTATTTAAAAGTATTTGCGGATATTATATCCATATTTGCGGCGTTTTAGTA
* * * *
34069622 AAAAACGCCACTAAAATTTCATGTATAGAGAGAGACGGTGCCGTTTTGTTAAAATATAAGTAAAT
326 AAAAACGCCACTAAAATTTCATATACAGAAAGAGACGGTGCCGTTTTATTAAAATATAAGTAAAT
* * ** *
34069687 TTTCTGGCGTTTTCATAAAAAACGCCACAAATATATTTGCTGAAACAATGCCGTTTTCCAGTTTA
391 TTTCTAGCGTTTTCATAAAAAACGCCACAAAT-GATTAACTGAAACAACGCCGTTTTCCAGTTTA
* *
34069752 AAGATAATTTATGGCGTTTTTCGAAAAACGCCACAAATAAAAATGCAGTAAATATTTGCTAAAAT
455 AAGATAATTTACGGCGTTTTTCGAAAAACGCCACAAATAAAAATGCAATAAATATTTGCTAAAAT
34069817 TTGAATAAATTTTATTATTTATTTATTTATCTATTGTATATTTAATTTAAATTTTACATAAATAA
520 TTGAATAAATTTTATTATTTATTTATTTATCTATTGTATATTTAATTTAAATTTTACATAAATAA
34069882 TTATTAAAATTTTAAGTAATATTTAAAAGTATTTAATATAAAAATTAATAACCCCTAATTCCCAA
585 TTATTAAAATTTTAAGTAATATTTAAAAGTATTTAATATAAAAATTAATAACCCCTAATTCCCAA
*
34069947 ATTCCTAACCCACAACCCCTAAATCCCCTTTAACCCTTAAAGCATAAACCCTAAACCCCTAAATC
650 ATTCCTAACCCACAACCCCTAAATCCCCCTTAACCCTTAAAGCATAAACCCTAAACCCCTAAATC
*** *
34070012 TCCTTAACCCCTAAAGCATAACCCCT-AAAAGTTTTATTATATAATTTTACTATTTAAATTTTAT
715 TCCTTAACCCCTAAAGCATAACCCCTAAAAAAAATTATTATATAATTTTACTATTTAAATTTTAC
*
34070076 GTAAATAAAT
780 ATAAATAAAT
34070086 ATTA
1 ATTA
34070090 TTTAAAAATA
Statistics
Matches: 757, Mismatches: 35, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
789 452 0.60
790 305 0.40
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (789 bp):
ATTAAAATTTTATCAACATTCGAATTTATAAATTATTGATATTATTCAAATAATGTATTACAATT
TTAAATTTATGCTATATTTTTAAGTTAAATTGGGTTGATGGAGATATGCCAGTATAATTTCATTT
CATGAAGCGCCCCTTAAAGAAAACGCCACAAATCTTACAAATTTTGAGGGTCAACTGAACTCGTC
AATGAAACGGCTCCGTTTTATTCAATTTTTCAAATATTATTTGCGGCGTTTTCCATAGAAACGCC
ACTAAATATTCACTTTATTTAAAAGTATTTGCGGATATTATATCCATATTTGCGGCGTTTTAGTA
AAAAACGCCACTAAAATTTCATATACAGAAAGAGACGGTGCCGTTTTATTAAAATATAAGTAAAT
TTTCTAGCGTTTTCATAAAAAACGCCACAAATGATTAACTGAAACAACGCCGTTTTCCAGTTTAA
AGATAATTTACGGCGTTTTTCGAAAAACGCCACAAATAAAAATGCAATAAATATTTGCTAAAATT
TGAATAAATTTTATTATTTATTTATTTATCTATTGTATATTTAATTTAAATTTTACATAAATAAT
TATTAAAATTTTAAGTAATATTTAAAAGTATTTAATATAAAAATTAATAACCCCTAATTCCCAAA
TTCCTAACCCACAACCCCTAAATCCCCCTTAACCCTTAAAGCATAAACCCTAAACCCCTAAATCT
CCTTAACCCCTAAAGCATAACCCCTAAAAAAAATTATTATATAATTTTACTATTTAAATTTTACA
TAAATAAAT
Found at i:34070416 original size:14 final size:15
Alignment explanation
Indices: 34070386--34070419 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
34070376 GATAACACCT
*
34070386 AATCCCTAAATCTTA
1 AATCCCTAAACCTTA
34070401 AATCCC-AAACCTTA
1 AATCCCTAAACCTTA
34070415 AATCC
1 AATCC
34070420 ATACCCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
AATCCCTAAACCTTA
Found at i:34070877 original size:113 final size:111
Alignment explanation
Indices: 34070631--34071085 Score: 383
Period size: 113 Copynumber: 4.0 Consensus size: 111
34070621 TAAATTATTT
* * * * *
34070631 TAAATCCCTGAGCATTAGCGGCGTTTTTCTAAAAACACTGCTAAA-TCCCTGAAAGCAT-AGAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAACGCCGCTAAATTCCC-GAAAGC-TCAG-AA
* * * * * * *
34070694 ACGACGACGTTGGGCTTAGTTTTTTTTGC-G-GCTATAC-AAAAAATGCCGC
63 ACG-CGCCGTTCGGATTAG-GTTTTTTGCGGCGCT-TTCTCAAAAACGCCGC
34070743 TAAATCCCTGAGCATTAGCGGCGCTTCT-CTAGAAACGCCGCTAAATTCCCGAAAAGCTCAGAAA
1 TAAATCCCTGAGCATTAGCGGCGCTT-TACTAGAAACGCCGCTAAATTCCCG-AAAGCTCAGAAA
* *
34070807 CGCTGCCGTT-GTACTTAGGTTTTTTGCGGCGCTTTTTCAAAAACGCCGC
64 CGC-GCCGTTCGGA-TTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* * * * *
34070856 TAAAGCCCTAAGAATTAGCGGCGCTTTACTAAAAACGCCACT-AA-TCACTCGAAAGCTCAGAAA
1 TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAACGCCGCTAAATTC-C-CGAAAGCTCAG--A
* * * * * *
34070919 AACG-GCATCGTTGGGATTAGGCTTTTTACGACGCTTACTCAAAAACGTCGC
62 AACGCGC--CGTTCGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* * * *
34070970 TAAATCCCTGAGCATTAACGGCGCTTTATTAGAAACGCCGCTAAATCCCCGAAAGCTCGGCAAAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAACGCCGCTAAATTCCCGAAAGCTCAG-AAAC
* *
34071035 GACGTCGTTCGGATTAGGTTTTTTGCGGCGCTTTCT-ATAAAACGCCAC
65 G-CGCCGTTCGGATTAGGTTTTTTGCGGCGCTTTCTCA-AAAACGCCGC
34071083 TAA
1 TAA
34071086 TTCTTATTCT
Statistics
Matches: 279, Mismatches: 42, Indels: 43
0.77 0.12 0.12
Matches are distributed among these distances:
111 12 0.04
112 73 0.26
113 104 0.37
114 83 0.30
115 6 0.02
116 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (111 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTACTAGAAACGCCGCTAAATTCCCGAAAGCTCAGAAACG
CGCCGTTCGGATTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
Found at i:34071173 original size:12 final size:12
Alignment explanation
Indices: 34071156--34071190 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
34071146 TTAGTAGAAA
34071156 ACGCCGCTAAAG
1 ACGCCGCTAAAG
34071168 ACGCCGCTAAAG
1 ACGCCGCTAAAG
34071180 ACGCCGCTAAA
1 ACGCCGCTAAA
34071191 AGCCTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.34, G:0.23, T:0.09
Consensus pattern (12 bp):
ACGCCGCTAAAG
Found at i:34073907 original size:19 final size:19
Alignment explanation
Indices: 34073883--34073921 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34073873 CTGGAGTAGG
34073883 AATTAACTTCATATCCTTA
1 AATTAACTTCATATCCTTA
34073902 AATTAACTTCATATCCTTA
1 AATTAACTTCATATCCTTA
34073921 A
1 A
34073922 GACGATAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTAACTTCATATCCTTA
Found at i:34073994 original size:15 final size:15
Alignment explanation
Indices: 34073970--34074002 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
34073960 CAGGTCTTTC
34073970 TTTCTTTTCTATG-T
1 TTTCTTTTCTATGAT
34073984 TTTCATTTTCTATGAT
1 TTTC-TTTTCTATGAT
34074000 TTT
1 TTT
34074003 TTCAATTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 9 0.53
16 4 0.24
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTCTTTTCTATGAT
Found at i:34094609 original size:21 final size:22
Alignment explanation
Indices: 34094584--34094638 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
34094574 TAAAAAATTT
34094584 AAAATAAAAAAAAT-AAGAA-A
1 AAAATAAAAAAAATGAAGAATA
*
34094604 ATAAATAAGAAATAATGAAGAATA
1 A-AAATAA-AAAAAATGAAGAATA
*
34094628 AAAATGAAAAA
1 AAAATAAAAAA
34094639 GAAAGACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.04
21 6 0.21
22 9 0.32
23 10 0.36
24 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (22 bp):
AAAATAAAAAAAATGAAGAATA
Found at i:34102237 original size:22 final size:21
Alignment explanation
Indices: 34102187--34102238 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
34102177 CCAGTCTAAA
* *
34102187 AACATGTCTAAACATTTATTT
1 AACATTTCTAAACATTTATTC
34102208 AACTATTTCTAAAC-TTTCATTCC
1 AAC-ATTTCTAAACATTT-ATT-C
34102231 AACATTTC
1 AACATTTC
34102239 CACGAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.23
22 17 0.65
23 3 0.12
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (21 bp):
AACATTTCTAAACATTTATTC
Found at i:34114270 original size:5 final size:5
Alignment explanation
Indices: 34114260--34114308 Score: 64
Period size: 5 Copynumber: 9.6 Consensus size: 5
34114250 ATAAGTATGT
*
34114260 TATTA TATTA TATTA TATTA TTATAA TATTA TATTA TTATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA -TATTA TATTA TATTA -TATTA TATTA TAT
34114309 AAAACAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 4 0.10
5 26 0.67
6 9 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:34114281 original size:8 final size:8
Alignment explanation
Indices: 34114259--34114299 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
34114249 AATAAGTATG
34114259 TTATTATA
1 TTATTATA
34114267 TTATATTATA
1 -T-TATTATA
34114277 TTATTATA
1 TTATTATA
*
34114285 ATATTATA
1 TTATTATA
34114293 TTATTAT
1 TTATTAT
34114300 TATATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 20 0.69
9 2 0.07
10 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATTATA
Found at i:34115122 original size:15 final size:16
Alignment explanation
Indices: 34115087--34115122 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
34115077 ATATATAAAT
34115087 TTATAAAATAAAAGCA
1 TTATAAAATAAAAGCA
34115103 TTATAAAATAAAAG-A
1 TTATAAAATAAAAGCA
34115118 TTATA
1 TTATA
34115123 GAACTATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
TTATAAAATAAAAGCA
Found at i:34115446 original size:22 final size:22
Alignment explanation
Indices: 34115418--34115484 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
34115408 TCTCTGATTG
*
34115418 TTAGCACATCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTATGT
*
34115440 TTAGCACATCTGTGCTCTATGT
1 TTAGCACATCAGTGCTCTATGT
* * * * *
34115462 ATGGCACTTTAGTGCTCTTTGT
1 TTAGCACATCAGTGCTCTATGT
34115484 T
1 T
34115485 CATTAGTGCA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.42
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTATGT
Found at i:34116745 original size:19 final size:19
Alignment explanation
Indices: 34116721--34116795 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
34116711 AATCTTCGAG
34116721 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34116740 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34116759 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
* *
34116780 GATATGTAATATTAGA
1 GATATGCAATCTTAGA
34116796 ATATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 33 0.63
21 19 0.37
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34116767 original size:21 final size:21
Alignment explanation
Indices: 34116722--34116784 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
34116712 ATCTTCGAGG
34116722 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
34116741 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
34116762 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
34116783 AT
1 AT
34116785 GTAATATTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:34116817 original size:23 final size:22
Alignment explanation
Indices: 34116736--34116818 Score: 59
Period size: 21 Copynumber: 3.9 Consensus size: 22
34116726 GCAATCTTAG
* *
34116736 ATATGATATGCAATCTTAG-AT
1 ATATGATATGTAATATTAGAAT
* *
34116757 ATGAT-ATATGCAATCTTAG---
1 AT-ATGATATGTAATATTAGAAT
34116776 ATATGATATGTAATATTAGAAT
1 ATATGATATGTAATATTAGAAT
* *
34116798 ATATGATTTTGTAATCTTAGA
1 ATATGA-TATGTAATATTAGA
34116819 GATTTAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.27
21 16 0.31
22 8 0.15
23 12 0.23
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (22 bp):
ATATGATATGTAATATTAGAAT
Found at i:34117263 original size:15 final size:15
Alignment explanation
Indices: 34117239--34117276 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
34117229 GTTTTTAGTC
34117239 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
34117253 TGTTATTATTATTTT
1 TATTATTATTAATTT
34117268 TATTATTAT
1 TATTATTAT
34117277 ATTATATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:34117270 original size:12 final size:12
Alignment explanation
Indices: 34117241--34117291 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
34117231 TTTTAGTCTA
34117241 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
34117253 TGTTATTATTAT
1 TTTTATTATTAT
34117265 TTTTATTATTAT
1 TTTTATTATTAT
34117277 ATTATATATTATTAT
1 -TT-T-TATTATTAT
34117292 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 3 0.09
12 18 0.55
13 2 0.06
14 1 0.03
15 9 0.27
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:34117286 original size:15 final size:13
Alignment explanation
Indices: 34117255--34117292 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
34117245 ATTAATTTTG
34117255 TTATTATTAT-TT
1 TTATTATTATATT
34117267 TTATTATTATATT
1 TTATTATTATATT
34117280 ATATATTATTATA
1 -T-TATTATTATA
34117293 CCTACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATTATTATATT
Found at i:34117381 original size:29 final size:31
Alignment explanation
Indices: 34117319--34117381 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
34117309 CATATGCATG
* **
34117319 TTAATATATATACATATATATTTTAAATGTT
1 TTAATATATATACATATATATTATAAATACT
*
34117350 TTAATATATATACATAT-TA-TATACATACT
1 TTAATATATATACATATATATTATAAATACT
34117379 TTA
1 TTA
34117382 TTATTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 9 0.32
30 2 0.07
31 17 0.61
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (31 bp):
TTAATATATATACATATATATTATAAATACT
Found at i:34139561 original size:10 final size:10
Alignment explanation
Indices: 34139546--34139571 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34139536 ATTTAAATAG
34139546 CATAAATATT
1 CATAAATATT
34139556 CATAAATATT
1 CATAAATATT
34139566 CATAAA
1 CATAAA
34139572 CATGTTTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (10 bp):
CATAAATATT
Found at i:34141233 original size:171 final size:170
Alignment explanation
Indices: 34140948--34141290 Score: 596
Period size: 171 Copynumber: 2.0 Consensus size: 170
34140938 TAAGGAATTA
*
34140948 AAAAATTTTATGGTTTGATTTTCACACTTTATTAAGAGTAACATTTATATCATAGTTCAAATAAC
1 AAAAATTTTATGGTTTGATTTACACACTTTATTAAGAGTAACATTTATATCATAGTTCAAATAAC
*
34141013 ATAGCAATTATTAAGATAATAAAACTTTATTTATACTAGAGTTTAGCATAATTAACAAAAATTCA
66 ATAGCAATTATTAAGATAATAAAACTTTATTTATACTAGAGTTTAGCATAATTAAAAAAAATTCA
*
34141078 AATTTTTGAACAAAATATAACTTAATCATAATTAGAAGAAT
131 AA-TTTTGAACAAAATATAACTTAATCAAAATTAGAAGAAT
* **
34141119 AAAAATTTTATGGTTTGATTTACACACTTTATTAAGAGTAACATTTATGTCATAGTTCAGCTAAC
1 AAAAATTTTATGGTTTGATTTACACACTTTATTAAGAGTAACATTTATATCATAGTTCAAATAAC
* *
34141184 ATAGCAATTATTGAGATATTAAAACTTTATTTATACTAGAGTTTAGCATAATTAAAAAAAATTCA
66 ATAGCAATTATTAAGATAATAAAACTTTATTTATACTAGAGTTTAGCATAATTAAAAAAAATTCA
*
34141249 AATTTTGAACAAAATATAACTTAATCAAAATTATAAGAAT
131 AATTTTGAACAAAATATAACTTAATCAAAATTAGAAGAAT
34141289 AA
1 AA
34141291 TGTATTATAA
Statistics
Matches: 163, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
170 38 0.23
171 125 0.77
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (170 bp):
AAAAATTTTATGGTTTGATTTACACACTTTATTAAGAGTAACATTTATATCATAGTTCAAATAAC
ATAGCAATTATTAAGATAATAAAACTTTATTTATACTAGAGTTTAGCATAATTAAAAAAAATTCA
AATTTTGAACAAAATATAACTTAATCAAAATTAGAAGAAT
Found at i:34143775 original size:29 final size:29
Alignment explanation
Indices: 34143743--34143900 Score: 156
Period size: 29 Copynumber: 5.4 Consensus size: 29
34143733 GGTCGTCACC
* * *
34143743 ATCCTTTTTCATAATCAATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
*
34143772 ATCCCTTTTCATATTCGATAGTCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* * * * *
34143801 ATCCCTCTTCATATTTGATAGTCGTCA-CC
1 ATCCCTTTTCATATTCGATAGCCG-AAGCT
* * *
34143830 ATCCCTTTTCATAATCGATATCTGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* *
34143859 ATCCCTTTTCATATTCGATACCCAAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
**
34143888 ATCTTTTTTCATA
1 ATCCCTTTTCATA
34143901 CTCAATGATC
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
28 1 0.01
29 103 0.98
30 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCGAAGCT
Found at i:34150281 original size:29 final size:29
Alignment explanation
Indices: 34150249--34150406 Score: 110
Period size: 29 Copynumber: 5.4 Consensus size: 29
34150239 GGTCATCACC
34150249 ATCCCTTTTCATAATTGATAGTCGAAGCT
1 ATCCCTTTTCATAATTGATAGTCGAAGCT
*
34150278 ATCCCTTTTTAT-ATTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATT-GATAGTCGAAGCT
* * *
34150307 ATCCCTCTTCAT-ATTAGATGGTC-ATCA-CC
1 ATCCCTTTTCATAATT-GATAGTCGA--AGCT
* *** * * * *
34150336 ATCCCTTTCCATGGCTAATGGTCGTCA-CC
1 ATCCCTTTTCATAATTGATAGTCG-AAGCT
* *
34150365 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATAGTCGAAGCT
34150394 ATCCCTTTTCATA
1 ATCCCTTTTCATA
34150407 TTCGATGATC
Statistics
Matches: 100, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
28 5 0.05
29 93 0.93
30 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATAGTCGAAGCT
Found at i:34154103 original size:15 final size:16
Alignment explanation
Indices: 34154076--34154105 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34154066 GATAACAATT
34154076 AATATATATTATATAA
1 AATATATATTATATAA
34154092 AATATA-ATTATATA
1 AATATATATTATATA
34154106 TTAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:34160132 original size:27 final size:26
Alignment explanation
Indices: 34160102--34160309 Score: 195
Period size: 27 Copynumber: 7.7 Consensus size: 26
34160092 AAATTGTGGT
*
34160102 TAAAATGGCTGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCC-CGAAGGG
34160129 TAAAATGA-TCGAAATACCCCCGAAGGG
1 TAAAATGACT-GAAATA-CCCCGAAGGG
* * *
34160156 TAAAAT-AATCGAAATACCCTCAAAGGA
1 TAAAATGACT-GAAATACCC-CGAAGGG
*
34160183 TAAAATGATTGAAATACCCCTGAAGGG
1 TAAAATGACTGAAATACCCC-GAAGGG
* * * *
34160210 TAAAATAACCGAAATATCCCCAAAAGG
1 TAAAATGACTGAAATA-CCCCGAAGGG
**
34160237 TAAAATGACCAAAATACCCCTGAAGGG
1 TAAAATGACTGAAATACCCC-GAAGGG
*
34160264 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGACTGAAATA-CCCCGAAGGG
* *
34160291 TAAAATGAATGAACTACCC
1 TAAAATGACTGAAATACCC
34160310 TCATAGGGTA
Statistics
Matches: 153, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
26 13 0.08
27 127 0.83
28 13 0.08
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (26 bp):
TAAAATGACTGAAATACCCCGAAGGG
Found at i:34160170 original size:54 final size:54
Alignment explanation
Indices: 34160112--34160298 Score: 259
Period size: 54 Copynumber: 3.5 Consensus size: 54
34160102 TAAAATGGCT
* * *
34160112 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATAATC
1 GAAATACCCTCAAAGGGTAAAATGATCGAAATACCCCTGAAGGGTAAAATAACC
* *
34160166 GAAATACCCTCAAAGGATAAAATGATTGAAATACCCCTGAAGGGTAAAATAACC
1 GAAATACCCTCAAAGGGTAAAATGATCGAAATACCCCTGAAGGGTAAAATAACC
* * * *
34160220 GAAATATCCC-CAAAAGGTAAAATGACCAAAATACCCCTGAAGGGTAAAATGACC
1 GAAATA-CCCTCAAAGGGTAAAATGATCGAAATACCCCTGAAGGGTAAAATAACC
* *
34160274 GAAATACCCCCGAAGGGTAAAATGA
1 GAAATACCCTCAAAGGGTAAAATGA
34160299 ATGAACTACC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 3 0.03
54 112 0.95
55 3 0.03
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (54 bp):
GAAATACCCTCAAAGGGTAAAATGATCGAAATACCCCTGAAGGGTAAAATAACC
Found at i:34160239 original size:81 final size:81
Alignment explanation
Indices: 34160102--34160296 Score: 232
Period size: 81 Copynumber: 2.4 Consensus size: 81
34160092 AAATTGTGGT
* * * * * *
34160102 TAAAATGGCTGAAATA-CCCTCGAAGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATAATC
1 TAAAATGACTGAAATACCCCT-GAAGGGTAAAATAACCGAAATACCCCCAAAAGGTAAAATAACC
*
34160166 GAAATA-CCCTCAAAGGA
65 AAAATACCCCT-AAAGGA
* * *
34160183 TAAAATGATTGAAATACCCCTGAAGGGTAAAATAACCGAAATATCCCCAAAAGGTAAAATGACCA
1 TAAAATGACTGAAATACCCCTGAAGGGTAAAATAACCGAAATACCCCCAAAAGGTAAAATAACCA
* *
34160248 AAATACCCCTGAAGGG
66 AAATACCCCTAAAGGA
* *
34160264 TAAAATGACCGAAATACCCCCGAAGGGTAAAAT
1 TAAAATGACTGAAATACCCCTGAAGGGTAAAAT
34160297 GAATGAACTA
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 89 0.92
82 8 0.08
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (81 bp):
TAAAATGACTGAAATACCCCTGAAGGGTAAAATAACCGAAATACCCCCAAAAGGTAAAATAACCA
AAATACCCCTAAAGGA
Found at i:34160309 original size:54 final size:54
Alignment explanation
Indices: 34160112--34160326 Score: 245
Period size: 54 Copynumber: 4.0 Consensus size: 54
34160102 TAAAATGGCT
* * * *
34160112 GAAATACCCTCGAAGGGTAAAATG-ATCGAAATACCCCCGAAGGGTAAAATAATC
1 GAAATACCCCCAAAGGGTAAAATGAAT-GAAATACCCCTGAAGGGTAAAATAACC
* * *
34160166 GAAATACCCTCAAAGGATAAAATGATTGAAATACCCCTGAAGGGTAAAATAACC
1 GAAATACCCCCAAAGGGTAAAATGAATGAAATACCCCTGAAGGGTAAAATAACC
* * *** *
34160220 GAAATATCCCCAAAAGGTAAAATGACCAAAATACCCCTGAAGGGTAAAATGACC
1 GAAATACCCCCAAAGGGTAAAATGAATGAAATACCCCTGAAGGGTAAAATAACC
* * * *
34160274 GAAATACCCCCGAAGGGTAAAATGAATGAACTA-CCCTCATAGGGTAATATAAC
1 GAAATACCCCCAAAGGGTAAAATGAATGAAATACCCCTGA-AGGGTAAAATAAC
34160327 TATTATACCC
Statistics
Matches: 136, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
53 5 0.04
54 130 0.96
55 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.17
Consensus pattern (54 bp):
GAAATACCCCCAAAGGGTAAAATGAATGAAATACCCCTGAAGGGTAAAATAACC
Found at i:34160320 original size:81 final size:79
Alignment explanation
Indices: 34160102--34160326 Score: 222
Period size: 81 Copynumber: 2.8 Consensus size: 79
34160092 AAATTGTGGT
* * *
34160102 TAAAATGGCTGAAATACCCTCGAAGGGTAAAATG-ATCGAAATACCCCCGAAGGGTAAAATAATC
1 TAAAATGACTGAAATACCCCCGAAGGGTAAAATGAAT-GAAATA-CCCC-AAGGGTAAAATAACC
*
34160166 GAAATACCCTCAAAGGA
63 AAAATACCCTCAAAGGA
* * * * *
34160183 TAAAATGATTGAAATACCCCTGAAGGGTAAAAT-AACCGAAATATCCCCAAAAGGTAAAATGACC
1 TAAAATGACTGAAATACCCCCGAAGGGTAAAATGAA-TGAAATA-CCCC-AAGGGTAAAATAACC
* *
34160247 AAAATACCC-CTGAAGGG
63 AAAATACCCTC-AAAGGA
* * *
34160264 TAAAATGACCGAAATACCCCCGAAGGGTAAAATGAATGAACTACCCTCATAGGGTAATATAAC
1 TAAAATGACTGAAATACCCCCGAAGGGTAAAATGAATGAAATACCC-CA-AGGGTAAAATAAC
34160327 TATTATACCC
Statistics
Matches: 117, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
80 5 0.04
81 110 0.94
82 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (79 bp):
TAAAATGACTGAAATACCCCCGAAGGGTAAAATGAATGAAATACCCCAAGGGTAAAATAACCAAA
ATACCCTCAAAGGA
Found at i:34160699 original size:30 final size:31
Alignment explanation
Indices: 34160658--34160718 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
34160648 ACTGAATTGT
*
34160658 ACTACTTACTGTATTGGGCTAAGGCCCACAC
1 ACTACTTACTGTAATGGGCTAAGGCCCACAC
34160689 ACTA-TTACTGTAATGGGCTAAGGCCCACAC
1 ACTACTTACTGTAATGGGCTAAGGCCCACAC
34160719 TGTACGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (31 bp):
ACTACTTACTGTAATGGGCTAAGGCCCACAC
Found at i:34162485 original size:30 final size:31
Alignment explanation
Indices: 34162433--34162493 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
34162423 ACTGAATTGT
* *
34162433 ACTATTTACTGTATTGGGCTAAGGCCCACAC
1 ACTATTTACTATAATGGGCTAAGGCCCACAC
* *
34162464 ACTA-TTACTATAATGGTCTAAGGCCTACAC
1 ACTATTTACTATAATGGGCTAAGGCCCACAC
34162494 TGTACTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTATTTACTATAATGGGCTAAGGCCCACAC
Found at i:34170970 original size:40 final size:40
Alignment explanation
Indices: 34170888--34171204 Score: 384
Period size: 40 Copynumber: 8.0 Consensus size: 40
34170878 GTGGCACGTA
* * **
34170888 TACCGAAGTACAAAAAGGGGCACGTAT-TGCAATCAAAGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGG
** *
34170927 TACCGAAGTACAAACAGGGGCATGTATGTGCAATTAGGGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGG
* * ** * *
34170967 TACCGAAGTACAAATAGGGACATGTATGTGCAATCAAGGC
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGG
* **
34171007 TACTGAAGTACAAACAGGCACACATATGTGCAATCAGGGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGG
* * * *
34171047 TACCAAAGTAAAAATAGGGGCACATATGTGCAATCAGAGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGG
*
34171087 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAAGGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGG
* * *
34171127 CACCAAAGTACATACAGGGGCACATATGTGCAATCAGGGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGG
* * *
34171167 TATCAAAGTACAAACAGGGGCACGTATGTGCAATCAGG
1 TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGG
34171205 TATAATTAAC
Statistics
Matches: 240, Mismatches: 37, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
39 25 0.10
40 215 0.90
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (40 bp):
TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGGGG
Found at i:34170984 original size:20 final size:20
Alignment explanation
Indices: 34170925--34170985 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
34170915 TGCAATCAAA
*
34170925 GGTACCGAAGTACAAACAGG
1 GGTACCGAAGTACAAATAGG
* * * * *
34170945 GGCA-TGTATGTGCAATTAGG
1 GGTACCG-AAGTACAAATAGG
34170965 GGTACCGAAGTACAAATAGG
1 GGTACCGAAGTACAAATAGG
34170985 G
1 G
34170986 ACATGTATGT
Statistics
Matches: 28, Mismatches: 11, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.34, C:0.15, G:0.33, T:0.18
Consensus pattern (20 bp):
GGTACCGAAGTACAAATAGG
Found at i:34171129 original size:20 final size:20
Alignment explanation
Indices: 34171027--34171204 Score: 105
Period size: 20 Copynumber: 8.9 Consensus size: 20
34171017 CAAACAGGCA
34171027 CACATATGTGCAATCAGGGG
1 CACATATGTGCAATCAGGGG
* * **
34171047 TACCA-AAGTAAAAAT-AGGGG
1 CA-CATATGT-GCAATCAGGGG
*
34171067 CACATATGTGCAATCAGAGG
1 CACATATGTGCAATCAGGGG
* ** * * *
34171087 TACCGAAGTACAAACAGGGG
1 CACATATGTGCAATCAGGGG
*
34171107 CACATATGTGCAATCAAGGG
1 CACATATGTGCAATCAGGGG
* *
34171127 CACCA-AAGTAC-ATACAGGGG
1 CA-CATATGTGCAAT-CAGGGG
34171147 CACATATGTGCAATCAGGGG
1 CACATATGTGCAATCAGGGG
* * * *
34171167 TATCA-AAGTACAAACAGGGG
1 CA-CATATGTGCAATCAGGGG
*
34171187 CACGTATGTGCAATCAGG
1 CACATATGTGCAATCAGG
34171205 TATAATTAAC
Statistics
Matches: 111, Mismatches: 37, Indels: 20
0.66 0.22 0.12
Matches are distributed among these distances:
19 10 0.09
20 90 0.81
21 11 0.10
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (20 bp):
CACATATGTGCAATCAGGGG
Found at i:34177502 original size:35 final size:35
Alignment explanation
Indices: 34177461--34177543 Score: 157
Period size: 35 Copynumber: 2.4 Consensus size: 35
34177451 TTGTTTTTAT
34177461 TTTTATTTTTATTACATAAATATTAATAAAAATTA
1 TTTTATTTTTATTACATAAATATTAATAAAAATTA
*
34177496 TTTTATTTTTATTACCTAAATATTAATAAAAATTA
1 TTTTATTTTTATTACATAAATATTAATAAAAATTA
34177531 TTTTATTTTTATT
1 TTTTATTTTTATT
34177544 TTTAAAATAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (35 bp):
TTTTATTTTTATTACATAAATATTAATAAAAATTA
Found at i:34177502 original size:41 final size:38
Alignment explanation
Indices: 34177455--34177547 Score: 129
Period size: 35 Copynumber: 2.4 Consensus size: 38
34177445 TAAATTTTGT
34177455 TTTTATTTTTATTTTTATTACATAAATATTAATAAAAA
1 TTTTATTTTTATTTTTATTACATAAATATTAATAAAAA
*
34177493 --TTA-TTTTATTTTTATTACCTAAATATTAATAAAAATTA
1 TTTTATTTTTATTTTTATTACATAAATATTAAT-AAAA--A
34177531 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTA
34177548 AAATAGTATA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
35 26 0.54
36 7 0.15
38 1 0.02
40 3 0.06
41 11 0.23
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (38 bp):
TTTTATTTTTATTTTTATTACATAAATATTAATAAAAA
Found at i:34183682 original size:27 final size:28
Alignment explanation
Indices: 34183604--34183682 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 28
34183594 TGACCACCCA
*
34183604 TGTTTATTATCCCAGCGAACTATC-CTG
1 TGTTTATTATCCCATCGAACTATCTCTG
* * * *
34183631 TGTTTAATGTCTCATC-AGACAATCTC-G
1 TGTTTATTATCCCATCGA-ACTATCTCTG
34183658 TGTTTATTATCCCATCGAACTATCT
1 TGTTTATTATCCCATCGAACTATCT
34183683 ATGATGTCGT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (28 bp):
TGTTTATTATCCCATCGAACTATCTCTG
Found at i:34183884 original size:45 final size:45
Alignment explanation
Indices: 34183835--34184038 Score: 282
Period size: 45 Copynumber: 4.5 Consensus size: 45
34183825 TGTCTTAACG
* * * *
34183835 TCTTTCAGCTATGGTCTTTCTGATTTTTATCATGATGTCATAGCT
1 TCTTTCAGCTATGGTCTTACTCATTTTTATCATGATGCCATAGCA
* *
34183880 TCTTTCAACTATGGTCTTACTCATTTTTATCATGATACCATAGCA
1 TCTTTCAGCTATGGTCTTACTCATTTTTATCATGATGCCATAGCA
* * * *
34183925 TCTTTCAGCTATGGTCTTATTCATTTTTGTCACGATGCCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTTTATCATGATGCCATAGCA
* *
34183970 TCTTTCAGCTATAGTCTTACTCATTTTTATCATAATGCCATAGCA
1 TCTTTCAGCTATGGTCTTACTCATTTTTATCATGATGCCATAGCA
* *
34184015 TCATTCAACTATGGTCTTACTCAT
1 TCTTTCAGCTATGGTCTTACTCAT
34184039 CTTGGCATAT
Statistics
Matches: 138, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 138 1.00
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.44
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTTTATCATGATGCCATAGCA
Found at i:34188037 original size:16 final size:16
Alignment explanation
Indices: 34188016--34188068 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
34188006 AGAGTGGAAA
*
34188016 GAAAATTAGAATGATG
1 GAAAATTAGAAAGATG
* *
34188032 GAAAATTAAAAAGATA
1 GAAAATTAGAAAGATG
* *
34188048 GAAAACTAGAAGGATG
1 GAAAATTAGAAAGATG
34188064 GAAAA
1 GAAAA
34188069 CATAATTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.58, C:0.02, G:0.23, T:0.17
Consensus pattern (16 bp):
GAAAATTAGAAAGATG
Found at i:34192067 original size:13 final size:13
Alignment explanation
Indices: 34192046--34192077 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34192036 TTGTTTAGGA
*
34192046 TGTGTAGTGAAAG
1 TGTGCAGTGAAAG
34192059 TGTGCAGTGAAAG
1 TGTGCAGTGAAAG
34192072 TGTGCA
1 TGTGCA
34192078 AAAATCAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.38, T:0.28
Consensus pattern (13 bp):
TGTGCAGTGAAAG
Found at i:34193638 original size:34 final size:34
Alignment explanation
Indices: 34193600--34193666 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
34193590 CTGGATAGTT
* * *
34193600 GAATTGTTTGAAATAATTTGTTTGAATTGCATGA
1 GAATTGCTTGAAATAATTTGATTAAATTGCATGA
**
34193634 GAATTGCTTGAAATGTTTTGATTAAATTGCATG
1 GAATTGCTTGAAATAATTTGATTAAATTGCATG
34193667 CGGGGTAGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.43
Consensus pattern (34 bp):
GAATTGCTTGAAATAATTTGATTAAATTGCATGA
Found at i:34198159 original size:27 final size:27
Alignment explanation
Indices: 34198090--34198161 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
34198080 CCTTTACTAT
* *
34198090 AATATATGAAAGGAACGCATTTGTGGC
1 AATATATGAAAGGAATGCATCTGTGGC
* *
34198117 AATATATGGAAGGAATGCCTCTGTGGC
1 AATATATGAAAGGAATGCATCTGTGGC
*
34198144 AATATACGAAAGGAATGC
1 AATATATGAAAGGAATGC
34198162 TTTAGTGGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (27 bp):
AATATATGAAAGGAATGCATCTGTGGC
Found at i:34198181 original size:27 final size:27
Alignment explanation
Indices: 34198151--34198218 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
34198141 GGCAATATAC
* * *
34198151 GAAAGGAATGCTTTAGTGGAAAACTTT
1 GAAAGGAATGCCTTAGAGGAAAACTCT
* * * *
34198178 GAAAAGAATACCTTCGAGGCAAACTCT
1 GAAAGGAATGCCTTAGAGGAAAACTCT
34198205 GAAAGGAATGCCTT
1 GAAAGGAATGCCTT
34198219 GACGGCATAC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (27 bp):
GAAAGGAATGCCTTAGAGGAAAACTCT
Found at i:34198225 original size:27 final size:27
Alignment explanation
Indices: 34198171--34198231 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
34198161 CTTTAGTGGA
*
34198171 AAACTTTGAAAAGAATACCTTCGAGGC
1 AAACTCTGAAAAGAATACCTTCGAGGC
* *
34198198 AAACTCTGAAAGGAATGCCTT-GACGGC
1 AAACTCTGAAAAGAATACCTTCGA-GGC
*
34198225 ATACTCT
1 AAACTCT
34198232 ATATGATGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
AAACTCTGAAAAGAATACCTTCGAGGC
Found at i:34203617 original size:13 final size:13
Alignment explanation
Indices: 34203599--34203625 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34203589 TTTCCAAAAA
34203599 TTATGAATTTATT
1 TTATGAATTTATT
34203612 TTATGAATTTATT
1 TTATGAATTTATT
34203625 T
1 T
34203626 AATGTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:34203787 original size:50 final size:50
Alignment explanation
Indices: 34203727--34203945 Score: 285
Period size: 50 Copynumber: 4.4 Consensus size: 50
34203717 TTGGGTAAAA
* *
34203727 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAG
*
34203777 AGGTCTCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAG
*
34203827 AGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAGATGAG
1 AGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAG
* ** * * ** * * *
34203877 AAGTCCCCCGTAAGACCATGTTTGGGACATGGTATGGGCACCTATATGAG
1 AGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAG
** *
34203927 AACTCTCATGTAAGACCAT
1 AGGTCCCATGTAAGACCAT
34203946 ATTTGAGATA
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 150 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAG
Found at i:34204505 original size:22 final size:21
Alignment explanation
Indices: 34204477--34204517 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
34204467 CAAAATAGGT
*
34204477 CTTTAGCGGCGTTTATTTAAGC
1 CTTTAGCGGCGCTT-TTTAAGC
34204499 CTTTAGCGGCGCTTTTTAA
1 CTTTAGCGGCGCTTTTTAA
34204518 CGCCACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (21 bp):
CTTTAGCGGCGCTTTTTAAGC
Found at i:34204693 original size:41 final size:42
Alignment explanation
Indices: 34204605--34204711 Score: 164
Period size: 42 Copynumber: 2.6 Consensus size: 42
34204595 TAGAGAAAAA
* * *
34204605 CGCCACTAAAGATCATGTTCTTTAGCGGCGTTTTTTCTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTCTTAAG
34204647 CGCCGCTAAAGAACATAG-TCTTTAGCGGCATTTTTTC-TAAG
1 CGCCGCTAAAGAACAT-GTTCTTTAGCGGCATTTTTTCTTAAG
34204688 CGCCGCTAAAGAACATGTTCTTTA
1 CGCCGCTAAAGAACATGTTCTTTA
34204712 ACAGCGCTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
40 1 0.02
41 26 0.43
42 32 0.53
43 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTTCTTAAG
Found at i:34205065 original size:21 final size:20
Alignment explanation
Indices: 34205039--34205109 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 20
34205029 TTTTGCTCTA
*
34205039 CTCTGCTTCTCTCGCTACAGC
1 CTCTGCTTC-CTCGCTGCAGC
34205060 CTCTGCTTCCTTCGCTGCAGC
1 CTCTGCTTCC-TCGCTGCAGC
* *
34205081 CGCTGCTTCCCTCGCTGCCGC
1 CTCTGCTT-CCTCGCTGCAGC
34205102 CTCTGCTT
1 CTCTGCTT
34205110 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.93
22 2 0.05
ACGTcount: A:0.04, C:0.45, G:0.18, T:0.32
Consensus pattern (20 bp):
CTCTGCTTCCTCGCTGCAGC
Found at i:34208104 original size:22 final size:22
Alignment explanation
Indices: 34208076--34208197 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
34208066 TTCCACATCC
34208076 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
34208098 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
34208122 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
34208145 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
34208169 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
34208192 ATCACA
1 ATCACA
34208198 CATACACTTT
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:34208111 original size:47 final size:47
Alignment explanation
Indices: 34208048--34208260 Score: 333
Period size: 47 Copynumber: 4.6 Consensus size: 47
34208038 CCCTTCGGGA
* * *
34208048 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
34208095 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
34208142 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
34208189 CTTATCAC--ACATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
34208234 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
34208261 TATTCAAATA
Statistics
Matches: 152, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
45 40 0.26
46 2 0.01
47 110 0.72
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:34208239 original size:92 final size:93
Alignment explanation
Indices: 34208048--34208260 Score: 331
Period size: 92 Copynumber: 2.3 Consensus size: 93
34208038 CCCTTCGGGA
* * * *
34208048 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ACATACAC
*
34208113 TTTCACATTCATCACATTGGCCATTCGGC
65 TTTCACATTCATCACATTGGCCATTAGGC
* *
34208142 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ACATACAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACAACATACAC
34208205 TTTCACATTCATCACATTGGCCATTAGGC
65 TTTCACATTCATCACATTGGCCATTAGGC
34208234 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
34208261 TATTCAAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
92 58 0.54
93 2 0.02
94 48 0.44
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.34
Consensus pattern (93 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAACATACACT
TTCACATTCATCACATTGGCCATTAGGC
Found at i:34209938 original size:56 final size:56
Alignment explanation
Indices: 34209871--34209990 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
34209861 TATTAGTTTA
34209871 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
34209927 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
34209983 TTGCCCAT
1 TTGCCCAT
34209991 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:34212562 original size:47 final size:47
Alignment explanation
Indices: 34212510--34213202 Score: 1143
Period size: 47 Copynumber: 14.6 Consensus size: 47
34212500 GATAATTGTG
* *
34212510 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34212557 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCTATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34212604 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34212651 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34212700 ATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34212748 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34212797 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34212844 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
34212891 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34212938 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34212987 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34213036 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34213083 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
34213130 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
34213177 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
34213203 TCCCGAAGGG
Statistics
Matches: 611, Mismatches: 28, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
47 381 0.62
48 44 0.07
49 184 0.30
50 2 0.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:34213076 original size:239 final size:239
Alignment explanation
Indices: 34212510--34213202 Score: 1234
Period size: 239 Copynumber: 2.9 Consensus size: 239
34212500 GATAATTGTG
34212510 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
34212573 ATGTGATAAGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
* *
34212638 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
131 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
34212703 TGAAA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
194 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34212748 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
34212813 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
34212878 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
34212943 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
196 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
34212987 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
34213052 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
* * * * *
34213117 GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
34213182 AAAGTGTATA-A-ATGTGATAAG
196 AAAGTGTATATATATGTGATAAG
34213203 TCCCGAAGGG
Statistics
Matches: 441, Mismatches: 11, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
237 10 0.02
238 48 0.11
239 241 0.55
240 142 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (239 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:34215683 original size:9 final size:9
Alignment explanation
Indices: 34215669--34215788 Score: 53
Period size: 9 Copynumber: 13.7 Consensus size: 9
34215659 TAAATATTAA
34215669 TAAGTTATG
1 TAAGTTATG
34215678 TAAGTTAT-
1 TAAGTTATG
*
34215686 T-A--TAAG
1 TAAGTTATG
34215692 TAAGTTATG
1 TAAGTTATG
34215701 TAAGTTAT-
1 TAAGTTATG
*
34215709 T-A--TAAG
1 TAAGTTATG
34215715 TAAGTTATG
1 TAAGTTATG
* *
34215724 AAAGTTATATA
1 TAAG-T-TATG
*
34215735 TAAGTCATG
1 TAAGTTATG
34215744 TATAAGTTATG
1 --TAAGTTATG
34215755 TAAGTTATTATG
1 TAAG---TTATG
34215767 TAAGTTATG
1 TAAGTTATG
*
34215776 T--GTTGTG
1 TAAGTTATG
34215783 TAAGTT
1 TAAGTT
34215789 TATATATAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 34
0.65 0.09 0.27
Matches are distributed among these distances:
5 4 0.05
6 2 0.02
7 10 0.12
8 2 0.02
9 40 0.48
10 2 0.02
11 14 0.17
12 9 0.11
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:34215696 original size:14 final size:14
Alignment explanation
Indices: 34215677--34215722 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
34215667 AATAAGTTAT
34215677 GTAAGTTATTATAA
1 GTAAGTTATTATAA
34215691 GTAAG---TTAT--
1 GTAAGTTATTATAA
34215700 GTAAGTTATTATAA
1 GTAAGTTATTATAA
34215714 GTAAGTTAT
1 GTAAGTTAT
34215723 GAAAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
9 5 0.19
11 4 0.15
12 4 0.15
14 14 0.52
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.43
Consensus pattern (14 bp):
GTAAGTTATTATAA
Found at i:34215696 original size:23 final size:23
Alignment explanation
Indices: 34215669--34215739 Score: 124
Period size: 23 Copynumber: 3.0 Consensus size: 23
34215659 TAAATATTAA
34215669 TAAGTTATGTAAGTTATTATAAG
1 TAAGTTATGTAAGTTATTATAAG
34215692 TAAGTTATGTAAGTTATTATAAG
1 TAAGTTATGTAAGTTATTATAAG
*
34215715 TAAGTTATGAAAGTTATATATAAG
1 TAAGTTATGTAAGTTAT-TATAAG
34215739 T
1 T
34215740 CATGTATAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 39 0.85
24 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (23 bp):
TAAGTTATGTAAGTTATTATAAG
Found at i:34215752 original size:31 final size:32
Alignment explanation
Indices: 34215715--34215776 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
34215705 TTATTATAAG
34215715 TAAGTTATGAAAGTTA-TATATAAGTCATGTA
1 TAAGTTATGAAAGTTATTATATAAGTCATGTA
* * *
34215746 TAAGTTATGTAAGTTATTATGTAAGTTATGT
1 TAAGTTATGAAAGTTATTATATAAGTCATGT
34215777 GTTGTGTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (32 bp):
TAAGTTATGAAAGTTATTATATAAGTCATGTA
Found at i:34215859 original size:96 final size:95
Alignment explanation
Indices: 34215705--34216007 Score: 500
Period size: 96 Copynumber: 3.2 Consensus size: 95
34215695 GTTATGTAAG
* * * *
34215705 TTATTATAAGTAAGTTATGAAAGTTATATATAAG-TCATGTATAAGTTATGTAAGTTATTATGTA
1 TTATT-TAAGTATG-TATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTA
34215769 AGTTATGTGTTGTGTAAGTTTATATATAAATT
64 AGTTATGTGTTGTGTAAGTTTATATATAAATT
34215801 TTATTTAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAA
1 TTATTTAAG-TATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAA
* *
34215866 GTTATCTGTTGTGTAAGTTTACATATAAATT
65 GTTATGTGTTGTGTAAGTTTATATATAAATT
34215897 TTATTTAAGCTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAA
1 TTATTTAAG-TATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAA
34215962 GTTATGTGTTGTGTAAGTTTATATATAAATT
65 GTTATGTGTTGTGTAAGTTTATATATAAATT
*
34215993 TTATTTATGTATGTA
1 TTATTTAAGTATGTA
34216008 AATTATGATA
Statistics
Matches: 195, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
95 28 0.14
96 167 0.86
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.49
Consensus pattern (95 bp):
TTATTTAAGTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAG
TTATGTGTTGTGTAAGTTTATATATAAATT
Found at i:34215941 original size:23 final size:23
Alignment explanation
Indices: 34215783--34215945 Score: 89
Period size: 24 Copynumber: 6.9 Consensus size: 23
34215773 ATGTGTTGTG
* * *
34215783 TAAGTTTATATATAAATTTTATT
1 TAAGTTTATATATAAGTTATATA
* *
34215806 TAAGTTATGTATGTAAGTTATATA
1 TAAGTT-TATATATAAGTTATATA
*
34215830 TAAGTTTATATATAAG-T-TATG
1 TAAGTTTATATATAAGTTATATA
* * *
34215851 TAAG-TTATTATGTAAGTTATCTGTTGTG
1 TAAGTTTA-TATATAAGTTA-----TATA
* * * *
34215879 TAAGTTTACATATAAATTTTATT
1 TAAGTTTATATATAAGTTATATA
* * *
34215902 TAAGCTATGTATGTAAGTTATATA
1 TAAG-TTTATATATAAGTTATATA
34215926 TAAGTTTATATATAAGTTAT
1 TAAGTTTATATATAAGTTAT
34215946 GTAAGTTATT
Statistics
Matches: 103, Mismatches: 26, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
20 3 0.03
21 14 0.14
22 2 0.02
23 33 0.32
24 34 0.33
28 14 0.14
29 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (23 bp):
TAAGTTTATATATAAGTTATATA
Found at i:34217618 original size:14 final size:14
Alignment explanation
Indices: 34217601--34217652 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
34217591 TACTTGGCCA
34217601 TATATTCCAGCAAG
1 TATATTCCAGCAAG
34217615 TATATTCCAGCAACTGG
1 TATATTCCAGCAA---G
34217632 AATATATTCCAGCAAG
1 --TATATTCCAGCAAG
34217648 TATAT
1 TATAT
34217653 ATTCCAAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 18 0.55
16 1 0.03
17 1 0.03
19 13 0.39
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (14 bp):
TATATTCCAGCAAG
Found at i:34218399 original size:148 final size:148
Alignment explanation
Indices: 34218101--34218383 Score: 399
Period size: 148 Copynumber: 1.9 Consensus size: 148
34218091 AAGCTAAAAC
* * *
34218101 TTGTGGCGCTTAGAGCAAAAACGCCACAAATACCATGGACAAAATGACACCGTTATTAGATAACC
1 TTGTGGCGCTTAGAGCAAAAACGCCACAAATAACATGGACAAAACGACACCGTTATCAGATAACC
* * *
34218166 ATAAACATTTTTACGGCGTTTTATCAAAAGTGCCACTAATAAAAATAGGAAACGGCGTCGTTACC
66 ATAAACATTTTTACGGCGCTTTAGCAAAAGTGCCACTAATAAAAATAGGAAACGGCGCCGTTACC
34218231 TCAACCACTAATAAATAT
131 TCAACCACTAATAAATAT
* * *
34218249 TTGTGGCGCTT-GCAGTAAAAACGCCACAAATAACATGGACAAAACGGCACTGTTATCAGATAAC
1 TTGTGGCGCTTAG-AGCAAAAACGCCACAAATAACATGGACAAAACGACACCGTTATCAGATAAC
* * ** * *
34218313 CTTAAACATTTTTGCGGCGCTTTAGCTGAAGTGCCACTAATAAAAGTAGGAAACGGTC-CCGTTT
65 CATAAACATTTTTACGGCGCTTTAGCAAAAGTGCCACTAATAAAAATAGGAAACGG-CGCCGTTA
34218377 CCTCAAC
129 CCTCAAC
34218384 TCGTAGTAAA
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
147 1 0.01
148 116 0.98
149 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (148 bp):
TTGTGGCGCTTAGAGCAAAAACGCCACAAATAACATGGACAAAACGACACCGTTATCAGATAACC
ATAAACATTTTTACGGCGCTTTAGCAAAAGTGCCACTAATAAAAATAGGAAACGGCGCCGTTACC
TCAACCACTAATAAATAT
Found at i:34218870 original size:8 final size:8
Alignment explanation
Indices: 34218848--34218916 Score: 60
Period size: 8 Copynumber: 9.2 Consensus size: 8
34218838 TTTGGGATTT
34218848 AACCC-TA
1 AACCCTTA
34218855 AA-CCTTA
1 AACCCTTA
34218862 AACCCTTA
1 AACCCTTA
*
34218870 AACCCTAA
1 AACCCTTA
*
34218878 AATCC-TA
1 AACCCTTA
*
34218885 AGCCGC-TA
1 AACC-CTTA
34218893 AACCCTTA
1 AACCCTTA
34218901 AACCC-TA
1 AACCCTTA
34218908 AA-CCTTA
1 AACCCTTA
34218915 AA
1 AA
34218917 TCTTAAAACT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
6 4 0.08
7 18 0.35
8 29 0.57
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.20
Consensus pattern (8 bp):
AACCCTTA
Found at i:34218873 original size:15 final size:15
Alignment explanation
Indices: 34218848--34218923 Score: 59
Period size: 14 Copynumber: 5.1 Consensus size: 15
34218838 TTTGGGATTT
34218848 AACCC-TAAACCTTA
1 AACCCTTAAACCTTA
*
34218862 AACCCTTAAACCCTAA
1 AACCCTTAAA-CCTTA
* * *
34218878 AATCC-TAAGCCGCTA
1 AACCCTTAAACC-TTA
*
34218893 AACCCTTAAACCCTA
1 AACCCTTAAACCTTA
*
34218908 AA-CCTTAAATCTTA
1 AACCCTTAAACCTTA
34218922 AA
1 AA
34218924 ACTAATAACC
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
14 19 0.39
15 17 0.35
16 13 0.27
ACGTcount: A:0.42, C:0.33, G:0.03, T:0.22
Consensus pattern (15 bp):
AACCCTTAAACCTTA
Found at i:34218923 original size:14 final size:15
Alignment explanation
Indices: 34218848--34218916 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 15
34218838 TTTGGGATTT
*
34218848 AACCC-TAAACCTTA
1 AACCCTTAAACCCTA
34218862 AACCCTTAAACCCTAA
1 AACCCTTAAACCCT-A
* *
34218878 AATCC-TAAGCCGCTA
1 AACCCTTAAACC-CTA
34218893 AACCCTTAAACCCTA
1 AACCCTTAAACCCTA
34218908 AA-CCTTAAA
1 AACCCTTAAA
34218917 TCTTAAAACT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
14 12 0.26
15 22 0.48
16 12 0.26
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.20
Consensus pattern (15 bp):
AACCCTTAAACCCTA
Found at i:34218993 original size:7 final size:7
Alignment explanation
Indices: 34218964--34219032 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
34218954 CAATATACCA
*
34218964 TAAACCT
1 TAAACCC
*
34218971 TAAATCC
1 TAAACCC
**
34218978 TAATTCC
1 TAAACCC
34218985 TAAACCC
1 TAAACCC
34218992 TAAA-CC
1 TAAACCC
*
34218998 TAAAACTC
1 T-AAACCC
*
34219006 TAAACTC
1 TAAACCC
*
34219013 TAAACCG
1 TAAACCC
34219020 TAAACCC
1 TAAACCC
*
34219027 CAAACC
1 TAAACC
34219033 GTAATCCTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
6 3 0.06
7 45 0.90
8 2 0.04
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:34219353 original size:14 final size:14
Alignment explanation
Indices: 34219334--34219386 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
34219324 CCTAAACCCC
34219334 AAACCCCAAATCTT
1 AAACCCCAAATCTT
*
34219348 AAACCCCAAACTCCT
1 AAACCCCAAA-TCTT
*
34219363 -AACCCCTAAATCTA
1 AAACCCC-AAATCTT
*
34219377 AAACACCAAA
1 AAACCCCAAA
34219387 ACCTACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCCAAATCTT
Found at i:34219587 original size:21 final size:22
Alignment explanation
Indices: 34219530--34219587 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
34219520 TCAAACTCTC
*
34219530 AAACCCTAAA-TCGAAAACACT
1 AAACCCTAAACTCGTAAACACT
*
34219551 AAA-CCT-AACATCGTAAACCCT
1 AAACCCTAAAC-TCGTAAACACT
34219572 AAACCCTAAACT-GTAA
1 AAACCCTAAACTCGTAA
34219588 TCCAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 2 0.06
20 3 0.10
21 19 0.61
22 4 0.13
23 3 0.10
ACGTcount: A:0.48, C:0.29, G:0.05, T:0.17
Consensus pattern (22 bp):
AAACCCTAAACTCGTAAACACT
Found at i:34220097 original size:115 final size:114
Alignment explanation
Indices: 34219746--34220612 Score: 760
Period size: 115 Copynumber: 7.6 Consensus size: 114
34219736 CGGTTTACCG
* * * * **
34219746 TAAGCGCCACAAATTTTATTATACATCAAGACCAAAACGTTGCGTTTTGGTTAAGGTATTTTATG
1 TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAAC-TTGCGTTTTGGTTAAGATATTTTGCG
* * **
34219811 GCGCTA--GCCACAAATCGCCGCTAATACTATGCTTTAGCGGCG-TTTCACCG
65 GCGCTATTG-C-CAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTC-CTA
* * * *
34219861 TAAGCGCCAATAATTCAAGTATTCATCCAA-ACCAAAACGTTGCGTTTTGGTTTAGATATTTTGC
1 TAAGCGCCACTAATTCTAGTATACAT-CAAGACCAAAAC-TTGCGTTTTGGTTAAGATATTTTGC
* *
34219925 GGCTC-A-T-CCAAAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCAA
64 GGCGCTATTGCC--AAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCTA
** ** *
34219975 TAAGCGCCACTAACGCTAACATACCTCAAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTGCG
1 TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACT-TGCGTTTTGGTTAAGATATTTTGCG
* * ** * *
34220040 GCGCTATTACCAAAGTGCCGCTAATACTATCCTTTAATGGCGTTTTACTG
65 GCGCTATTGCCAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCTA
* *
34220090 TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGTGTTTTGGTTAAGATATTTTGCG
1 TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAAC-TTGCGTTTTGGTTAAGATATTTTGCG
* ** * * *
34220155 GCGCCA--GCCACTATTCGCCGCTAATACTATGCTATAGCGGCGTTTTCGGTA
65 GCGCTATTGCCA--AAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTC-CTA
* *
34220206 -AA-CGCCACTAATTCTAGTATA-AGCAAGACCAAAA-TGATGCGTTTTGGTTTAGATATTTTGC
1 TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACT--TGCGTTTTGGTTAAGATATTTTGC
* * * * **
34220267 AGCGCT-TT-CAAAAAGC-CCTGCTAATACTAT-TTGTTTGTAGCGTTTTCCTA
64 GGCGCTATTGC-CAAAGCGCC-GCTAATACTATCCT-TTAGCGGCGTTTTCCTA
* * *
34220317 TAAGCGCCACTAATTCTAGCATACCTCAAGACC-AAACTCTGCG-TTTGGTAAAGATATTTTGCG
1 TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACT-TGCGTTTTGGTTAAGATATTTTGCG
* * * *
34220380 GCGCTTTTGGCAAAGCGCCGCTAATACTATGCC-TTAACGGTGTTTTCCCT-
65 GCGCTATTGCCAAAGCGCCGCTAATACTAT-CCTTTAGCGGCGTTTT-CCTA
* * *
34220430 TAAGCGCCACTAATTCTAGGATACATCAAGACCAAAACGATGCATTTTGGTTAAGATATTTTTGC
1 TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAAC-TTGCGTTTTGGTTAAGATA-TTTTGC
* * * *
34220495 GGCGC-ATTTCGCAAAACGCTGCTAATAC---GCTTTAGCGGCGTTTT-CTCA
64 GGCGCTATTGC-CAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCT-A
* ** * *
34220543 TAATCGCCACTAATTCTAGTATACGCCAAGACGAAAACGTTGTGTTTTGGTTAAGATATTTTGCG
1 TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAAC-TTGCGTTTTGGTTAAGATATTTTGCG
34220608 GCGCT
65 GCGCT
34220613 TTGTGGTAAA
Statistics
Matches: 611, Mismatches: 101, Indels: 82
0.77 0.13 0.10
Matches are distributed among these distances:
111 7 0.01
112 60 0.10
113 190 0.31
114 124 0.20
115 197 0.32
116 31 0.05
117 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (114 bp):
TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTTGCGTTTTGGTTAAGATATTTTGCGG
CGCTATTGCCAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCTA
Found at i:34220149 original size:229 final size:229
Alignment explanation
Indices: 34219746--34220609 Score: 814
Period size: 229 Copynumber: 3.8 Consensus size: 229
34219736 CGGTTTACCG
* * ** * **
34219746 TAAGCGCCACAAATTTTATTATACATCAAGACCAAAACGT-TGCGTTTTGGTTAAGGTATTTTAT
1 TAAGCGCCACTAATTCTAGCATACATCAAGACCAAAAC-TATGCGTTTTGGTTAAGATATTTTGC
** * ** *
34219810 GGCGCTAGCCAC-AAATCGCCGCTAATACTATGCTTTAGCGGCGTTTCACCGTAAGCGCCAATAA
65 GGCGCTATTCACAAAAT-GCCGCTAATACTATGCTTTAGCGGCGTTTTACTATAAGCGCCACTAA
* * * * * *
34219874 TTCAAGTATTCATCCAA-ACCAAAACGTTGCGTTTTGGTTTAGATATTTTGCGGCTCATCCAAAA
129 TTCTAGTATACAT-CAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCCCATCCACAA
34219938 AGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCAA
193 AGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCAA
** * * *
34219975 TAAGCGCCACTAACGCTAACATACCTCAAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTGCG
1 TAAGCGCCACTAATTCTAGCATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCG
* * ** *
34220040 GCGCTATT-ACCAAAGTGCCGCTAATACTATCCTTTAATGGCGTTTTACTGTAAGCGCCACTAAT
66 GCGCTATTCA-CAAAATGCCGCTAATACTATGCTTTAGCGGCGTTTTACTATAAGCGCCACTAAT
* * * *
34220104 TCTAGTATACATCAAGACCAAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGCCAGCCACTAT
130 TCTAGTATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGC-CCATCCACAAA
* * * **
34220169 TCGCCGCTAATACTATGCTATAGCGGCGTTTT-CGG
194 GCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCAA
* * * *
34220204 TAAACGCCACTAATTCTAGTATA-AGCAAGACCAAAA-TGATGCGTTTTGGTTTAGATATTTTGC
1 TAAGCGCCACTAATTCTAGCATACATCAAGACCAAAACT-ATGCGTTTTGGTTAAGATATTTTGC
* ** *
34220267 AGCGCT-TTCA-AAAA-GCCCTGCTAATACTATTTG-TTT-GTAGCGTTTTCCTATAAGCGCCAC
65 GGCGCTATTCACAAAATG-CC-GCTAATACTA--TGCTTTAGCGGCGTTTTACTATAAGCGCCAC
* * * * ** ***
34220327 TAATTCTAGCATACCTCAAGACC-AAACTCTGCG-TTTGGTAAAGATATTTTGCGGCGCTTTTGG
126 TAATTCTAGTATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGC-CCATCCA
* * **
34220390 CAAAGCGCCGCTAATACTATGCC-TTAACGGTGTTTTCCCT
190 CAAAGCGCCGCTAATACTAT-CCTTTAGCGGCGTTTTCCAA
* * *
34220430 TAAGCGCCACTAATTCTAGGATACATCAAGACCAAAACGATGCATTTTGGTTAAGATATTTTTGC
1 TAAGCGCCACTAATTCTAGCATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATA-TTTTGC
* * * *
34220495 GGCGC-ATTTCGCAAAACGCTGCTAATAC---GCTTTAGCGGCGTTTT-CTCATAATCGCCACTA
65 GGCGCTA-TTCACAAAATGCCGCTAATACTATGCTTTAGCGGCGTTTTACT-ATAAGCGCCACTA
** * * *
34220555 ATTCTAGTATACGCCAAGACGAAAACGTTGTGTTTTGGTTAAGATATTTTGCGGC
128 ATTCTAGTATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGC
34220610 GCTTTGTGGT
Statistics
Matches: 520, Mismatches: 90, Indels: 51
0.79 0.14 0.08
Matches are distributed among these distances:
224 1 0.00
225 56 0.11
226 73 0.14
227 90 0.17
228 79 0.15
229 177 0.34
230 43 0.08
231 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (229 bp):
TAAGCGCCACTAATTCTAGCATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCG
GCGCTATTCACAAAATGCCGCTAATACTATGCTTTAGCGGCGTTTTACTATAAGCGCCACTAATT
CTAGTATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCCCATCCACAAAGC
GCCGCTAATACTATCCTTTAGCGGCGTTTTCCAA
Found at i:34225414 original size:26 final size:27
Alignment explanation
Indices: 34225365--34225428 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
34225355 AAAAAAAACT
34225365 AAAATATTATAATTTTTTTTATTTACC
1 AAAATATTATAATTTTTTTTATTTACC
*
34225392 AAAATATTATAA-TTTTTTTATTTATC
1 AAAATATTATAATTTTTTTTATTTACC
34225418 AAAATA-TATAA
1 AAAATATTATAA
34225429 AAAAACAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 5 0.14
26 19 0.53
27 12 0.33
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (27 bp):
AAAATATTATAATTTTTTTTATTTACC
Found at i:34225504 original size:27 final size:27
Alignment explanation
Indices: 34225474--34225525 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
34225464 GGCCAATCAC
34225474 ATTGGCGGCACCGAA-GGTGCCAAAGAG
1 ATTGGCGGCACC-AATGGTGCCAAAGAG
*
34225501 ATTGGGGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
34225526 GACTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.29, C:0.21, G:0.37, T:0.13
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:34226049 original size:19 final size:19
Alignment explanation
Indices: 34226025--34226120 Score: 106
Period size: 19 Copynumber: 5.2 Consensus size: 19
34226015 TCTAATTAAG
34226025 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
** ***
34226044 TAATAA-AATATTCCCATT
1 TAATAACTCTATTTTAATT
34226062 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
34226081 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
34226099 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
34226118 TAA
1 TAA
34226121 AAAAGTTAAG
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
18 28 0.47
19 31 0.53
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:34226055 original size:18 final size:18
Alignment explanation
Indices: 34226033--34226120 Score: 86
Period size: 18 Copynumber: 4.8 Consensus size: 18
34226023 AGTAATAACT
34226033 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* *** *
34226051 ATATTCCCATTTAATAACT
1 CTATTTTAATTTAATAA-A
34226070 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* * *
34226088 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAA-A
34226107 CTATTTTAATTTAA
1 CTATTTTAATTTAA
34226121 AAAAGTTAAG
Statistics
Matches: 53, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
18 28 0.53
19 25 0.47
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:34226075 original size:37 final size:37
Alignment explanation
Indices: 34226025--34226124 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
34226015 TCTAATTAAG
34226025 TAATAACTCTATTTTAATTTAATAAAATATTCCCATT
1 TAATAACTCTATTTTAATTTAATAAAATATTCCCATT
* *
34226062 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAAATATTCCCATT
34226099 TAATAACTCTATTTTAATTTAA-AAAA
1 TAATAACTCTATTTTAATTTAATAAAA
34226125 GTTAAGTAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
36 3 0.05
37 57 0.95
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAAATATTCCCATT
Found at i:34226221 original size:19 final size:19
Alignment explanation
Indices: 34226197--34226292 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
34226187 TCTAATTAAG
34226197 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
34226216 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
34226234 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
34226253 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
34226271 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
34226290 TAA
1 TAA
34226293 AAAATTAAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.48
19 33 0.52
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:34226238 original size:37 final size:37
Alignment explanation
Indices: 34226197--34226292 Score: 192
Period size: 37 Copynumber: 2.6 Consensus size: 37
34226187 TCTAATTAAG
34226197 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
34226234 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
34226271 TAATAACTCTATTTTAATTTAA
1 TAATAACTCTATTTTAATTTAA
34226293 AAAATTAAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:34226252 original size:172 final size:172
Alignment explanation
Indices: 34226010--34226382 Score: 703
Period size: 172 Copynumber: 2.2 Consensus size: 172
34226000 TAAGATACTT
34226010 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAAATATTCCCATTTAATAACTCTATT
1 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAAATATTCCCATTTAATAACTCTATT
34226075 TTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAAAAAAGTTAAGTAAACTATT
66 TTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAAAAAA-TTAAGTAAACTATT
34226140 TTAATTTAATTTTTTT-AAATTAAAATAGAGTTATTAAATGAG
130 TTAATTTAATTTTTTTAAAATTAAAATAGAGTTATTAAATGAG
* *
34226182 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
1 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAAATATTCCCATTTAATAACTCTATT
34226247 TTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAAAAAATTAAGTAAACTATTT
66 TTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAAAAAATTAAGTAAACTATTT
34226312 TAATTTAATTTTTTTAAAATTAAAATAGAGTTATTAAATGAG
131 TAATTTAATTTTTTTAAAATTAAAATAGAGTTATTAAATGAG
*
34226354 AGAATTATAATTAAGTAATAACTCTATTT
1 AGAATTCTAATTAAGTAATAACTCTATTT
34226383 AAGAGCTTAT
Statistics
Matches: 197, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
171 30 0.15
172 167 0.85
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.45
Consensus pattern (172 bp):
AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAAATATTCCCATTTAATAACTCTATT
TTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTTAAAAAATTAAGTAAACTATTT
TAATTTAATTTTTTTAAAATTAAAATAGAGTTATTAAATGAG
Found at i:34226713 original size:27 final size:27
Alignment explanation
Indices: 34226683--34226743 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
34226673 GTTTTTTGGT
* *
34226683 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGATAAATAAAAAAAGTTATA
34226710 ATATTTTGATAAATAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAGTTATA
34226737 ATATTTT
1 ATATTTT
34226744 AGTTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.43
Consensus pattern (27 bp):
ATATTTTGATAAATAAAAAAAGTTATA
Found at i:34230771 original size:16 final size:16
Alignment explanation
Indices: 34230752--34230791 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
34230742 TTTGGTTATA
34230752 TTTAATTTTCGATATG
1 TTTAATTTTCGATATG
*
34230768 TTTAATTTTTGATATG
1 TTTAATTTTCGATATG
*
34230784 TTTCATTT
1 TTTAATTT
34230792 AAAATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (16 bp):
TTTAATTTTCGATATG
Found at i:34230946 original size:47 final size:47
Alignment explanation
Indices: 34230877--34230966 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
34230867 TTTGGTCTTC
34230877 AAACAATGTTTTATATTACTTATATTGTCTGATTAAAAATTATAATT
1 AAACAATGTTTTATATTACTTATATTGTCTGATTAAAAATTATAATT
* *
34230924 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAGTTAT
1 AAACAATGTTTTATATTACTTATATTGTCTGATTAAAAATTAT
34230967 CTCAACAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.48
Consensus pattern (47 bp):
AAACAATGTTTTATATTACTTATATTGTCTGATTAAAAATTATAATT
Found at i:34231386 original size:17 final size:18
Alignment explanation
Indices: 34231361--34231406 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
34231351 TATAACAATA
*
34231361 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
34231378 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
34231396 ATTAAATTATA
1 ATTAAATTATA
34231407 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:34231947 original size:38 final size:39
Alignment explanation
Indices: 34231905--34231980 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
34231895 AAGAGAGAGA
34231905 GAAAGTTA-TCCTAATTTA-ATTTTAAATCATTTTAAAAT
1 GAAAGTTATTCC-AATTTATATTTTAAATCATTTTAAAAT
* *
34231943 GAAAGTTATTCCAATTTATTTTTTAAATTATTTTAAAA
1 GAAAGTTATTCCAATTTATATTTTAAATCATTTTAAAA
34231981 ATAAAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 14 0.41
39 20 0.59
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (39 bp):
GAAAGTTATTCCAATTTATATTTTAAATCATTTTAAAAT
Found at i:34231978 original size:39 final size:39
Alignment explanation
Indices: 34231905--34232015 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
34231895 AAGAGAGAGA
*
34231905 GAAAGTTATCCTAATTTA-ATTTTAAATCATTTT-AAAAT
1 GAAAGTTATCC-AATTTATTTTTTAAATCATTTTAAAAAT
*
34231943 GAAAGTTATTCCAATTTATTTTTTAAATTATTTTAAAAAT
1 GAAAGTTA-TCCAATTTATTTTTTAAATCATTTTAAAAAT
* * * * *
34231983 AAAAATGATCTCAATTTATTTTTAAAATGATTT
1 GAAAGTTATC-CAATTTATTTTTTAAATCATTT
34232016 GTTTTTATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
38 14 0.23
39 18 0.29
40 30 0.48
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (39 bp):
GAAAGTTATCCAATTTATTTTTTAAATCATTTTAAAAAT
Found at i:34233285 original size:21 final size:21
Alignment explanation
Indices: 34233245--34233285 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34233235 TTCTAATTTT
*
34233245 TTAAAATTTATTAAAAATAAA
1 TTAAAATTTATGAAAAATAAA
* *
34233266 TTAAAATTTCTGAAATATAA
1 TTAAAATTTATGAAAAATAA
34233286 TTTTTTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAATTTATGAAAAATAAA
Done.