Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 109 of 136
Found at i:36886326 original size:8 final size:8
Alignment explanation
Indices: 36886315--36886339 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36886305 AACATTAAAT
36886315 AAATATTA
1 AAATATTA
36886323 AAATATTA
1 AAATATTA
36886331 AAATATTA
1 AAATATTA
36886339 A
1 A
36886340 CTCCCTCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATATTA
Found at i:36888796 original size:92 final size:91
Alignment explanation
Indices: 36888580--36888807 Score: 307
Period size: 92 Copynumber: 2.5 Consensus size: 91
36888570 AATAATATTA
* * *
36888580 GTTGTGATATTAAATTAGTGAGCTATTTGGAGTAACGATAGTAAATAAGCTAACTCAAAGATTTT
1 GTTGTGATCTTAAATTAGTGAGCTATTTGGAGTAACGATAGAAAACAAGCTAACTCAAAGATTTT
36888645 TCATGATAGTAAATCAATGAACTTAG
66 TCATGATAGTAAATCAATGAACTTAG
* * ** * *
36888671 GCTGTGATCTTAAATCAGTGAGCTATTCAGAGTAACGGA-AGAAAACCAGTTAACTCAGAAGATT
1 GTTGTGATCTTAAATTAGTGAGCTATTTGGAGTAAC-GATAGAAAACAAGCTAACTCA-AAGATT
36888735 ATTT-ATGATAGTAAATCAATGAACTTAG
64 -TTTCATGATAGTAAATCAATGAACTTAG
* * *
36888763 GTTGTGATCTTAAATTAGTGAGCTGTTTGGAGTAGCGATACAAAA
1 GTTGTGATCTTAAATTAGTGAGCTATTTGGAGTAACGATAGAAAA
36888808 TCAACTGTTA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
91 47 0.40
92 67 0.57
93 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (91 bp):
GTTGTGATCTTAAATTAGTGAGCTATTTGGAGTAACGATAGAAAACAAGCTAACTCAAAGATTTT
TCATGATAGTAAATCAATGAACTTAG
Found at i:36890759 original size:23 final size:23
Alignment explanation
Indices: 36890732--36890778 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
36890722 GAGCTCTTTT
36890732 TTGTTGAGCTGGTGAGTTTCCCC
1 TTGTTGAGCTGGTGAGTTTCCCC
36890755 TTGTTGAGCTGGTGAGTTTCCCC
1 TTGTTGAGCTGGTGAGTTTCCCC
36890778 T
1 T
36890779 AGATAACTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.21, G:0.30, T:0.40
Consensus pattern (23 bp):
TTGTTGAGCTGGTGAGTTTCCCC
Found at i:36896298 original size:16 final size:14
Alignment explanation
Indices: 36896263--36896305 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
36896253 AAGGGAAGGG
36896263 AAAAAG-AAAG-AA
1 AAAAAGAAAAGAAA
36896275 AAAAAGAAAAGGAAA
1 AAAAAGAAAA-GAAA
36896290 AAAATAGAAAAGAAA
1 AAAA-AGAAAAGAAA
36896305 A
1 A
36896306 GATAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.22
13 3 0.11
14 1 0.04
15 11 0.41
16 6 0.22
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:36896647 original size:16 final size:17
Alignment explanation
Indices: 36896626--36896660 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
36896616 GTTATTTTGA
36896626 TTATTTTAATATT-TTT
1 TTATTTTAATATTGTTT
36896642 TTATTTTAATATTGTTT
1 TTATTTTAATATTGTTT
36896659 TT
1 TT
36896661 TTATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTATTTTAATATTGTTT
Found at i:36898766 original size:12 final size:12
Alignment explanation
Indices: 36898751--36898809 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
36898741 TATAGAGGTC
* *
36898751 GAGCCAGAGCTA
1 GAGCCCGAGCCA
* *
36898763 GAGCCTGAGCCG
1 GAGCCCGAGCCA
*
36898775 GAGCCTGAGCCA
1 GAGCCCGAGCCA
36898787 GAGCCCGAGCTC-
1 GAGCCCGAGC-CA
36898799 GAGCCCGAGCC
1 GAGCCCGAGCC
36898810 TGATAGGTCG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
11 1 0.02
12 39 0.95
13 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.36, T:0.07
Consensus pattern (12 bp):
GAGCCCGAGCCA
Found at i:36898772 original size:18 final size:17
Alignment explanation
Indices: 36898751--36898809 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
36898741 TATAGAGGTC
*
36898751 GAGCCAGAGCTAGAGCCT
1 GAGCCAGAGCT-GAGCCA
*
36898769 GAGCCGGAGCCTGAGCCA
1 GAGCCAGAG-CTGAGCCA
* *
36898787 GAGCCCGAGCTCGAGCCC
1 GAGCCAGAGCT-GAGCCA
36898805 GAGCC
1 GAGCC
36898810 TGATAGGTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.22, C:0.36, G:0.36, T:0.07
Consensus pattern (17 bp):
GAGCCAGAGCTGAGCCA
Found at i:36899425 original size:62 final size:62
Alignment explanation
Indices: 36899344--36899462 Score: 202
Period size: 62 Copynumber: 1.9 Consensus size: 62
36899334 TTTGTTTGTA
* *
36899344 ATATAAATTAAATACATTACATCACTAAAAATTGGAACCAACATTGTAATATAAATTGTGTT
1 ATATAAATTAAATACATTACAACACTAAAAATTGGAACAAACATTGTAATATAAATTGTGTT
* *
36899406 ATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
1 ATATAAATTAAATACATTACAACACTAAAAATTGGAACAAACATTGTAATATAAATT
36899463 AGGTACATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.34
Consensus pattern (62 bp):
ATATAAATTAAATACATTACAACACTAAAAATTGGAACAAACATTGTAATATAAATTGTGTT
Found at i:36902710 original size:27 final size:27
Alignment explanation
Indices: 36902679--36902741 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
36902669 CTAGGTGTGT
36902679 CGCCTATCAGATAGGCACCACTAGTGC
1 CGCCTATCAGATAGGCACCACTAGTGC
*** *
36902706 CGCCTATCAGATAGGGGTCACTGGTGC
1 CGCCTATCAGATAGGCACCACTAGTGC
36902733 CGCCTATCA
1 CGCCTATCA
36902742 AGTAGACACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21
Consensus pattern (27 bp):
CGCCTATCAGATAGGCACCACTAGTGC
Found at i:36903645 original size:25 final size:26
Alignment explanation
Indices: 36903599--36903651 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
36903589 ATCAAATAAA
*
36903599 AAATATATATAATTTTAAATTTTATCT
1 AAATATATATAAATTT-AATTTTATCT
* *
36903626 AAATATTTATAAATTT-ATTTTTTCT
1 AAATATATATAAATTTAATTTTATCT
36903651 A
1 A
36903652 CTCACATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
27 14 0.61
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (26 bp):
AAATATATATAAATTTAATTTTATCT
Found at i:36904545 original size:20 final size:20
Alignment explanation
Indices: 36904520--36904568 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
36904510 AGGAGTCATT
*
36904520 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATC
*
36904540 AAATCAAATTGATTAGAATC
1 AAATCAAATTGATTAAAATC
*
36904560 AAATAAAAT
1 AAATCAAAT
36904569 CAAGATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:36905725 original size:378 final size:378
Alignment explanation
Indices: 36904560--36906328 Score: 2288
Period size: 378 Copynumber: 4.7 Consensus size: 378
36904550 GATTAGAATC
* * * *
36904560 AAATAAAATCAAGATAAATTTCCTTTTATAAATAGATTCTTTATGTTTGCTGAGAAAAATTAACT
1 AAATCAAATCAAGATAAATGTCCTTTTAAAAATAGATTCTTTATGTTTGCTGAGAAAAAATAACT
* * *
36904625 TTCGTGCTGGGCTAAAATATCCGCAGGCTCATTTTGCGCCCGACTAGTCTAGACATTTCGCGTCG
66 TTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTAGTCTAGACATTTCGCGTCG
* * *
36904690 CCCACGTTGTGCTGGTGCACCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGCGCAAGGT
131 CCCACGTTGTGC-GGTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGCTCAAGGC
* * * *
36904755 AAGGTTTCAAGCTTAGTCATTCAATCA-CTCTTCAAGTGGATTCTCATATATATTTGTGTTTTTT
195 AAGGTTTCAAGCTTAGTCATTCAATCACCT-TTCAAGTGGGTTCTCATATATATTGGGGGTTTTT
*
36904819 TTTTAAATTCTGAAGAATTCTTTAGGCTTTTATAGACAATCAATATGAAGGTATTTTGGAAATTT
259 TTTTAAATTCTGAAGAATTCTTTAGGCTTTTATAGACATTCAATATGAAGGTATTTTGGAAATTT
* * *
36904884 CCATGAATAAAGAAACAAAATCTGCAATAAATGAGCCACTAAATCAATTTGATTA
324 CCATGAATAAAGATACAAAATCTGCATTAAATGAGCCATTAAATCAATTTGATTA
* * * *
36904939 CAATCAAATCAAGATAAATTTCCTTTTATAAATAGATTCTTTATGTTTGCTGAGAAAAATTAACT
1 AAATCAAATCAAGATAAATGTCCTTTTAAAAATAGATTCTTTATGTTTGCTGAGAAAAAATAACT
* *
36905004 TTCGTGCTGGGCTAAAATATCCGCAGGCCCATTTTGCGCCCGACTAGTCTAGACATTTCGCGTCG
66 TTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTAGTCTAGACATTTCGCGTCG
*
36905069 CCCACGTTGTGCTGGTGCACCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACG-TGCAAGG
131 CCCACGTTGTGC-GGTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGCT-CAAGG
*
36905133 CAAGGTTTCAAGCTTAGTCATTCAATCA-CTCTTCAAGTGGATTCTCATATATATTTGTGTGTGT
194 CAAGGTTTCAAGCTTAGTCATTCAATCACCT-TTCAAGTGGGTTCTCATATATA-TTG-G-G-G-
* *
36905197 TTTTTTTTTTTTAAATTCTGAAGAATTCTTTAGGCTTTTATAGGCATTCAATATGAAGGTATTTT
253 --GTTTTTTTTTAAATTCTGAAGAATTCTTTAGGCTTTTATAGACATTCAATATGAAGGTATTTT
* *
36905262 GGAAATTTCCATGAATAAAGATACAAAATCTGCATTAAAGGAGCCATTGAATCAATTTGATTA
316 GGAAATTTCCATGAATAAAGATACAAAATCTGCATTAAATGAGCCATTAAATCAATTTGATTA
*
36905325 AAATCAAATCAAGATAAATGTCCTTTTAAAAACAGATTCTTTATGTTTGCTGAGAAAAAATAACT
1 AAATCAAATCAAGATAAATGTCCTTTTAAAAATAGATTCTTTATGTTTGCTGAGAAAAAATAACT
* * * * * *
36905390 TTCGTGTTGGGCT-AAATATCCGCAGGCCCATTTTGGGCCAGATTGGTCTGGACATTTCGAGTTG
66 TTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTAGTCTAGACATTTCGCGTCG
* * *
36905454 CCTATGTCGTGCGAGTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGCTCAAGGC
131 CCCACGTTGTGCG-GTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGCTCAAGGC
* * *
36905519 AGGGTTTCAAGCTTAGTCATTCAATCACCTTTCAAGTGGGTTCTCATATATATTGGGGGTCTTTC
195 AAGGTTTCAAGCTTAGTCATTCAATCACCTTTCAAGTGGGTTCTCATATATATTGGGGGTTTTTT
* ** *
36905584 TTAAAATTCTGAAGAATTCTTTAGGCTTTTATAGGTATTCAATATGGAGGTATTTTGGAAATTTC
260 TTTAAATTCTGAAGAATTCTTTAGGCTTTTATAGACATTCAATATGAAGGTATTTTGGAAATTTC
* * *
36905649 TATGAATAAAGATACAAAATTTGCATTAAATGAGTCATTAAATCAATTTGATTA
325 CATGAATAAAGATACAAAATCTGCATTAAATGAGCCATTAAATCAATTTGATTA
* * *
36905703 AAATCAAATCAAGATAAATGTCCTTTTAAAAATAGATTATGTATGTTTGTTGAGAAAAAATAACT
1 AAATCAAATCAAGATAAATGTCCTTTTAAAAATAGATTCTTTATGTTTGCTGAGAAAAAATAACT
* * * * * * *
36905768 TTCGTGTTGGGCTAAAATATCCGTAGGCCCATTTTTGGCCTGAC-CGTTCCAGACATTTCCCATC
66 TTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTAG-TCTAGACATTTCGCGTC
* * ** * * * *
36905832 ACCTATATCGTTCGAGTGCGCCCCAACCCTGATAGGTTTGGATCTGC-ACCCCCTGA-G-TCGAA
130 GCCCACGTTGTGCG-GTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCT-ACGCTC-AA
* * * * *
36905894 -GCAGGGTTTCAAGCTTAGTCATTCAATCACCCTTCAAGTGGGTTCTCTTATATATT-AGTG-TT
192 GGCAAGGTTTCAAGCTTAGTCATTCAATCACCTTTCAAGTGGGTTCTCATATATATTGGGGGTTT
* *
36905956 TTTTTT--ATTCTGAAGAATTCTTTAGGCTTTTATAGACATTGAATATGGAGGTATTTTGGAAAT
257 TTTTTTAAATTCTGAAGAATTCTTTAGGCTTTTATAGACATTCAATATGAAGGTATTTTGGAAAT
* * * *
36906019 TTTCATGAATAAAGATACAAAATATGCATTAAATGAGTCATTAAATCAAATTGATTTGAA
322 TTCCATGAATAAAGATACAAAATCTGCATTAAATGAGCCATTAAATCAATTTGA-TT--A
* * * * * *
36906079 TCAAATAAAATCAAGATAAATATCCTTTTAAAAACAGATTATGTATGTTTGTTGAGAAAAAATAA
1 --AAATCAAATCAAGATAAATGTCCTTTTAAAAATAGATTCTTTATGTTTGCTGAGAAAAAATAA
* * * * **
36906144 CTTTCGTGTTGGGCTAAAATATTCGCAAGCCCAATTTGGGCCCGATTAGTCCGGACATTTCGCGT
64 CTTTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTAGTCTAGACATTTCGCGT
* * * * * * * *
36906209 CACCCACATTGTGTGGGTGCGCTCCAACCCCGATGGGTTTGGATTTGTAACCCCCAACGCGT-GA
129 CGCCCACGTTGTG-CGGTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGC-TCAA
* ** * *
36906273 GGTAAAATTTCAAGCTTAGTTATTCAATCACCCTTCAAGTGGGTTCTCATATATAT
192 GGCAAGGTTTCAAGCTTAGTCATTCAATCACCTTTCAAGTGGGTTCTCATATATAT
36906329 ACACATCTCA
Statistics
Matches: 1253, Mismatches: 110, Indels: 53
0.88 0.08 0.04
Matches are distributed among these distances:
373 104 0.08
374 2 0.00
375 5 0.00
376 3 0.00
377 56 0.04
378 349 0.28
379 331 0.26
380 51 0.04
381 3 0.00
382 1 0.00
383 2 0.00
384 4 0.00
385 148 0.12
386 194 0.15
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (378 bp):
AAATCAAATCAAGATAAATGTCCTTTTAAAAATAGATTCTTTATGTTTGCTGAGAAAAAATAACT
TTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTAGTCTAGACATTTCGCGTCG
CCCACGTTGTGCGGTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGCTCAAGGCA
AGGTTTCAAGCTTAGTCATTCAATCACCTTTCAAGTGGGTTCTCATATATATTGGGGGTTTTTTT
TTAAATTCTGAAGAATTCTTTAGGCTTTTATAGACATTCAATATGAAGGTATTTTGGAAATTTCC
ATGAATAAAGATACAAAATCTGCATTAAATGAGCCATTAAATCAATTTGATTA
Found at i:36906577 original size:18 final size:17
Alignment explanation
Indices: 36906550--36906583 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36906540 TGTCTCAAAG
*
36906550 TTTTCAAAAATTACAAT
1 TTTTCAAAAATAACAAT
36906567 TTTTCCAAAAATAACAA
1 TTTT-CAAAAATAACAA
36906584 ATATTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTTCAAAAATAACAAT
Found at i:36907055 original size:18 final size:18
Alignment explanation
Indices: 36907034--36907068 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36907024 TCTAAGTTTT
*
36907034 TATTTTATTTATAAAATC
1 TATTTTATTTAAAAAATC
36907052 TATTTTATTTAAAAAAT
1 TATTTTATTTAAAAAAT
36907069 TATCATCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTTTATTTAAAAAATC
Found at i:36909141 original size:13 final size:15
Alignment explanation
Indices: 36909123--36909154 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
36909113 ATGGAATGCT
36909123 TATGATAG-A-TTAA
1 TATGATAGCATTTAA
36909136 TATGATAGCATTTAA
1 TATGATAGCATTTAA
36909151 TATG
1 TATG
36909155 CTTATAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.41
Consensus pattern (15 bp):
TATGATAGCATTTAA
Found at i:36909186 original size:34 final size:34
Alignment explanation
Indices: 36909134--36909299 Score: 122
Period size: 34 Copynumber: 4.9 Consensus size: 34
36909124 ATGATAGATT
* ** *
36909134 AATATGATAGCATTTAATATGCTTATAATAGTTC
1 AATATGGTAGCAAATAATATGCTTATAACAGTTC
* * *
36909168 AATATGGTAGCAAATAATATACTTACAACGGATT-
1 AATATGGTAGCAAATAATATGCTTATAACAG-TTC
* * * * *
36909202 AATACGGTAGTAATTAATATGCTTCTAACAGATC
1 AATATGGTAGCAAATAATATGCTTATAACAGTTC
* * * *
36909236 AATAAGGTA-AAAACTAACATGCTTATAACAGATC
1 AATATGGTAGCAAA-TAATATGCTTATAACAGTTC
* *
36909270 AATGTGGT-GCCAAATAATATGTTTATAACA
1 AATATGGTAG-CAAATAATATGCTTATAACA
36909300 AATCACTATA
Statistics
Matches: 102, Mismatches: 25, Indels: 10
0.74 0.18 0.07
Matches are distributed among these distances:
33 3 0.03
34 94 0.92
35 5 0.05
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (34 bp):
AATATGGTAGCAAATAATATGCTTATAACAGTTC
Found at i:36920430 original size:41 final size:43
Alignment explanation
Indices: 36920384--36920465 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 43
36920374 CCATAAATTT
*
36920384 TTTGCAGAT-AAACTACCA-ATGGTTGTGGACACACAACAGAA
1 TTTGCAAATAAAACTACCACATGGTTGTGGACACACAACAGAA
* * *
36920425 TTTGCAAATGAAAACTGCCACATGGTTTTGGATACACAACA
1 TTTGCAAAT-AAAACTACCACATGGTTGTGGACACACAACA
36920466 AAATATCGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 8 0.24
43 8 0.24
44 18 0.53
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (43 bp):
TTTGCAAATAAAACTACCACATGGTTGTGGACACACAACAGAA
Found at i:36920786 original size:67 final size:68
Alignment explanation
Indices: 36920677--36920808 Score: 160
Period size: 67 Copynumber: 2.0 Consensus size: 68
36920667 TTCGACACAG
* * ***
36920677 TAGCAAATAATATGATCATAATGGATCAATACGGTGGTAATTAATATACTTATAACAGAAT-AAT
1 TAGCAAATAACATGATCATAATAGATCAATACGGTAACAATTAATATACTTATAACA-AATCAAT
36920741 ACGT
65 ACGT
* * **
36920745 TAGC-AATAACATGATTATAATAGATCAATGCGGTAACAATTAATATGTTTATAACAAATCAATA
1 TAGCAAATAACATGATCATAATAGATCAATACGGTAACAATTAATATACTTATAACAAATCAATA
36920809 TAGTAGCAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
66 3 0.06
67 47 0.87
68 4 0.07
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (68 bp):
TAGCAAATAACATGATCATAATAGATCAATACGGTAACAATTAATATACTTATAACAAATCAATA
CGT
Found at i:36920806 original size:34 final size:34
Alignment explanation
Indices: 36920701--36920808 Score: 87
Period size: 34 Copynumber: 3.2 Consensus size: 34
36920691 ATCATAATGG
***
36920701 ATCAATACGGTGGTAATTAATAT-ACTTATAACAGA
1 ATCAATACGGTAACAATTAATATGA-TTATAACA-A
* * * * *
36920736 AT-AATACGTTAGCAA-TAACATGATTATAATAG
1 ATCAATACGGTAACAATTAATATGATTATAACAA
* *
36920768 ATCAATGCGGTAACAATTAATATGTTTATAACAA
1 ATCAATACGGTAACAATTAATATGATTATAACAA
36920802 ATCAATA
1 ATCAATA
36920809 TAGTAGCAAA
Statistics
Matches: 56, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
32 2 0.04
33 22 0.39
34 30 0.54
35 2 0.04
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (34 bp):
ATCAATACGGTAACAATTAATATGATTATAACAA
Found at i:36921676 original size:22 final size:22
Alignment explanation
Indices: 36921651--36921695 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
36921641 GATTCGATTA
36921651 ATGATAATTCTAAAATCGATGG
1 ATGATAATTCTAAAATCGATGG
*
36921673 ATGATAATTCTAAAATTGATGG
1 ATGATAATTCTAAAATCGATGG
36921695 A
1 A
36921696 AAGAACGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (22 bp):
ATGATAATTCTAAAATCGATGG
Found at i:36923333 original size:7 final size:7
Alignment explanation
Indices: 36923321--36923346 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36923311 TCAAATATAT
36923321 TAAAATG
1 TAAAATG
36923328 TAAAATG
1 TAAAATG
36923335 TAAAATG
1 TAAAATG
36923342 TAAAA
1 TAAAA
36923347 AATATTCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
TAAAATG
Found at i:36927276 original size:10 final size:10
Alignment explanation
Indices: 36927261--36927286 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
36927251 TTAATTTTAA
36927261 TTTTTAGAAT
1 TTTTTAGAAT
36927271 TTTTTAGAAT
1 TTTTTAGAAT
36927281 TTTTTA
1 TTTTTA
36927287 TAAAATTTAA
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:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:36938236 original size:20 final size:20
Alignment explanation
Indices: 36938213--36938250 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36938203 GCCTAGGTCG
*
36938213 CATTCTATTAGCCTTTGTGA
1 CATTATATTAGCCTTTGTGA
*
36938233 CATTATGTTAGCCTTTGT
1 CATTATATTAGCCTTTGT
36938251 AGTGTACTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (20 bp):
CATTATATTAGCCTTTGTGA
Found at i:36944597 original size:26 final size:25
Alignment explanation
Indices: 36944529--36944602 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
36944519 ATATTTTCTA
* *
36944529 AAAATTTTACTGAAGGCAAAATCATC
1 AAAATTTTA-TGAGGGTAAAATCATC
**
36944555 AAAATTTTACCAGGGGTAAAATCATC
1 AAAATTTTATGA-GGGTAAAATCATC
36944581 AAAATTTTGATGAGGGTAAAAT
1 AAAATTTT-ATGAGGGTAAAAT
36944603 AGGGATAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.03
26 37 0.93
27 2 0.05
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (25 bp):
AAAATTTTATGAGGGTAAAATCATC
Found at i:36947941 original size:27 final size:27
Alignment explanation
Indices: 36947911--36947977 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
36947901 AATGCACCAG
*
36947911 AGTGCCAATATCAATGAGTTGCATTGA
1 AGTGCCAATATCAATGAGTTGCATCGA
* * *
36947938 AGTGCCAATAACATTGTGTTGCATCGA
1 AGTGCCAATATCAATGAGTTGCATCGA
*
36947965 AGGGCCAATATCA
1 AGTGCCAATATCA
36947978 CTAATTTGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (27 bp):
AGTGCCAATATCAATGAGTTGCATCGA
Found at i:36949380 original size:13 final size:14
Alignment explanation
Indices: 36949348--36949379 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
36949338 AATTATCATG
36949348 ATTTTATATGAAAA
1 ATTTTATATGAAAA
36949362 ATTTTATATGAAAA
1 ATTTTATATGAAAA
36949376 ATTT
1 ATTT
36949380 AACACCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (14 bp):
ATTTTATATGAAAA
Found at i:36953664 original size:13 final size:13
Alignment explanation
Indices: 36953646--36953671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36953636 TATCATGTGG
36953646 CATGTTTTATATA
1 CATGTTTTATATA
36953659 CATGTTTTATATA
1 CATGTTTTATATA
36953672 TCAATTCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
CATGTTTTATATA
Found at i:36954375 original size:22 final size:22
Alignment explanation
Indices: 36954331--36954375 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
36954321 AAATGCTGGG
**
36954331 CAATAGGCACCGTAATGTGAAT
1 CAATAGGCACCGTAATGCAAAT
*
36954353 CAATAGGCACCGTAGTGCAAAT
1 CAATAGGCACCGTAATGCAAAT
36954375 C
1 C
36954376 CTGTAAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
CAATAGGCACCGTAATGCAAAT
Found at i:36965929 original size:12 final size:13
Alignment explanation
Indices: 36965908--36965941 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
36965898 GAAGTAAAAC
*
36965908 AAAGAAAAAAAATA
1 AAAGAAAAAATA-A
36965922 AAAGAAAAAATAA
1 AAAGAAAAAATAA
36965935 AAAGAAA
1 AAAGAAA
36965942 GAAGAAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAGAAAAAATAA
Found at i:36991692 original size:44 final size:43
Alignment explanation
Indices: 36991642--36991784 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 43
36991632 TCTGCTCTAC
36991642 TGCAACTTCAGAGAGATGAGATCTGCGATTTTAATCCACTCCAT
1 TGCAACTTCAGAGAGAT-AGATCTGCGATTTTAATCCACTCCAT
* * ** *
36991686 TGCAACTTCA-AGGAGATAGGAT-TG-GCTTACTTCAGTCTGCTCCAC
1 TGCAACTTCAGA-GAGATA-GATCTGCGATT--TT-AATCCACTCCAT
* *
36991731 TGCAACTTCAGGGAGATAAGATCTGCGATTTTAATCCACTCCGT
1 TGCAACTTCAGAGAGAT-AGATCTGCGATTTTAATCCACTCCAT
36991775 TGCAACTTCA
1 TGCAACTTCA
36991785 AGAAGATTGG
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
42 3 0.04
43 4 0.05
44 37 0.47
45 28 0.36
46 3 0.04
47 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
TGCAACTTCAGAGAGATAGATCTGCGATTTTAATCCACTCCAT
Found at i:36991783 original size:89 final size:88
Alignment explanation
Indices: 36991632--36991839 Score: 344
Period size: 89 Copynumber: 2.4 Consensus size: 88
36991622 TCTGATGCGA
* * *
36991632 TCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGCGATTTTAATCCACTCCATTGCAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCGATTTTAATCCACTCCATTGCAACTTCAA
*
36991697 GGAGATAGGATTGGCTTACTTCAG
66 GAAGATAGGATTGG-TTACTTCAG
*
36991721 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCGATTTTAATCCACTCCGTTGCAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCGATTTTAATCCACTCCATTGCAACTTCAA
*
36991786 GAAGATTGGATTGGTTACTTCAG
66 GAAGATAGGATTGGTTACTTCAG
*
36991809 TCTGCTCCACTGCAATTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
36991840 CTTGTATCTT
Statistics
Matches: 112, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 39 0.35
89 73 0.65
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (88 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCGATTTTAATCCACTCCATTGCAACTTCAA
GAAGATAGGATTGGTTACTTCAG
Found at i:36991823 original size:44 final size:45
Alignment explanation
Indices: 36991680--36991836 Score: 151
Period size: 44 Copynumber: 3.5 Consensus size: 45
36991670 TTTTAATCCA
* *
36991680 CTCCATTGCAACTTCAAGGAGATAGGATTGGCTTACTTCAGTCTG
1 CTCCACTGCAACTTCAAGGAGATAGGATTGGATTACTTCAGTCTG
* * * **
36991725 CTCCACTGCAACTTCAGGGAGATAAGATCTGCGATT--TT-AATCCA
1 CTCCACTGCAACTTCAAGGAGATAGGAT-TG-GATTACTTCAGTCTG
** * *
36991769 CTCCGTTGCAACTTCAAGAAGATTGGATTGG-TTACTTCAGTCTG
1 CTCCACTGCAACTTCAAGGAGATAGGATTGGATTACTTCAGTCTG
* *
36991813 CTCCACTGCAATTTCAGGGAGATA
1 CTCCACTGCAACTTCAAGGAGATA
36991837 AGACTTGTAT
Statistics
Matches: 85, Mismatches: 22, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 4 0.05
44 46 0.54
45 27 0.32
46 2 0.02
47 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAAGGAGATAGGATTGGATTACTTCAGTCTG
Found at i:36992157 original size:50 final size:50
Alignment explanation
Indices: 36992103--36992326 Score: 198
Period size: 50 Copynumber: 4.5 Consensus size: 50
36992093 CGGGGAAACC
* *
36992103 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGTCAGGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTA
* * * ** * * * ***
36992153 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTA
* *
36992203 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGTC-AGGGAAGTA
* * * ** * * * ***
36992253 AGATCTGCCGTCGTGGCTTCAATCTTTTTAATTGCAATATCAGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTA
36992303 AGATCCGCCGTCGTAGCTTCAATC
1 AGATCCGCCGTCGTAGCTTCAATC
36992327 NNNNNNNNNN
Statistics
Matches: 131, Mismatches: 41, Indels: 4
0.74 0.23 0.02
Matches are distributed among these distances:
49 1 0.01
50 129 0.98
51 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTA
Found at i:36992250 original size:100 final size:100
Alignment explanation
Indices: 36992069--36992326 Score: 410
Period size: 100 Copynumber: 2.6 Consensus size: 100
36992059 GGTCTGAAAT
* * * *
36992069 CTTCAATCTATTCAATTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* *
36992134 CCGCACCGTCAGGGAAGTAAGATCCGCCGTTGTGG
66 CCGCACCGTCAAGGAAGTAAGATCCGCCGTCGTGG
*
36992169 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
* * *
36992234 CTGCACTG-CTAAGGAAGTAAGATCTGCCGTCGTGG
66 CCGCACCGTC-AAGGAAGTAAGATCCGCCGTCGTGG
36992269 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATC
1 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATC
36992327 NNNNNNNNNN
Statistics
Matches: 146, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
99 1 0.01
100 145 0.99
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
CCGCACCGTCAAGGAAGTAAGATCCGCCGTCGTGG
Found at i:36997844 original size:20 final size:20
Alignment explanation
Indices: 36997819--36997856 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36997809 TAAAGAAATT
36997819 AAATGC-AATGGAAAATAATG
1 AAATGCAAAT-GAAAATAATG
36997839 AAATGCAAATGAAAATAA
1 AAATGCAAATGAAAATAA
36997857 CAAAACTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.61, C:0.05, G:0.16, T:0.18
Consensus pattern (20 bp):
AAATGCAAATGAAAATAATG
Found at i:37002648 original size:51 final size:50
Alignment explanation
Indices: 37002584--37002700 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 50
37002574 AATTTCCACG
37002584 TCATTT-TCATTTTCATTTTGGAGAAAA-CTACATTCATTTCGAAATGTTT
1 TCATTTCTCATTTTCATTTTGGAGAAAATC-ACATTCATTTCGAAATGTTT
*
37002633 TCATTTCTCTATTTTCATTTTGGAGAAAATCACATTCATTTCTAAATGTTT
1 TCATTTCTC-ATTTTCATTTTGGAGAAAATCACATTCATTTCGAAATGTTT
37002684 TCATTTCTCCATTTTCA
1 TCATTTCT-CATTTTCA
37002701 CCATTTCTAT
Statistics
Matches: 63, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
49 6 0.10
50 2 0.03
51 53 0.84
52 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (50 bp):
TCATTTCTCATTTTCATTTTGGAGAAAATCACATTCATTTCGAAATGTTT
Found at i:37007892 original size:21 final size:22
Alignment explanation
Indices: 37007856--37007896 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
37007846 TGATTGTTTG
37007856 TATATTTTAAAAAATTTTAATA
1 TATATTTTAAAAAATTTTAATA
*
37007878 TATATTTT-TAAAATTTTAA
1 TATATTTTAAAAAATTTTAA
37007897 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATATTTTAAAAAATTTTAATA
Found at i:37007896 original size:8 final size:8
Alignment explanation
Indices: 37007883--37007908 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
37007873 TAATATATAT
37007883 TTTTAAAA
1 TTTTAAAA
37007891 TTTTAAAA
1 TTTTAAAA
37007899 TTTTAAAA
1 TTTTAAAA
37007907 TT
1 TT
37007909 ATTTTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAAAA
Found at i:37009679 original size:14 final size:14
Alignment explanation
Indices: 37009635--37009685 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
37009625 CCAATTTTTT
*
37009635 ATTTTAAATCTTCAA
1 ATTTTCAAT-TTCAA
37009650 ATTTT-AACTTTC-A
1 ATTTTCAA-TTTCAA
37009663 ATTTTCAATTTCAA
1 ATTTTCAATTTCAA
37009677 ATTTTCAAT
1 ATTTTCAAT
37009686 CATCAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 10 0.30
14 17 0.52
15 6 0.18
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTTTCAATTTCAA
Found at i:37009712 original size:13 final size:13
Alignment explanation
Indices: 37009690--37009719 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37009680 TTCAATCATC
*
37009690 AATTATTTTTTTA
1 AATTAGTTTTTTA
37009703 AATTAGTTTTTTA
1 AATTAGTTTTTTA
37009716 AATT
1 AATT
37009720 TATTATCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
AATTAGTTTTTTA
Found at i:37011455 original size:63 final size:63
Alignment explanation
Indices: 37011379--37011537 Score: 185
Period size: 63 Copynumber: 2.5 Consensus size: 63
37011369 TTTTTTTTGT
* * * * *** *
37011379 CACAATCATCACAACACGCACACTCATTCCCTGCATTATCACCTTC-AGTTTCGGTTTATTTTA
1 CACAATCACCACAACACGCACAATCATTCCCTGCATTAACACATTCAACACT-AGTTTATTTTA
*
37011442 CACAATCACCACAACACACACAATCATTCCCTGCATTAACACATTCAACACTAGTTTATTTTA
1 CACAATCACCACAACACGCACAATCATTCCCTGCATTAACACATTCAACACTAGTTTATTTTA
* * * *
37011505 CACAAGCACCACAACACGCCCCATCTTTCCCTG
1 CACAATCACCACAACACGCACAATCATTCCCTG
37011538 TAACAACATC
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 79 0.98
64 2 0.02
ACGTcount: A:0.31, C:0.35, G:0.06, T:0.27
Consensus pattern (63 bp):
CACAATCACCACAACACGCACAATCATTCCCTGCATTAACACATTCAACACTAGTTTATTTTA
Found at i:37016524 original size:41 final size:41
Alignment explanation
Indices: 37016460--37016600 Score: 156
Period size: 41 Copynumber: 3.4 Consensus size: 41
37016450 ATTATACTTG
** *
37016460 AATTGCACATACGTGCCATTGTTTGTTCTTCGATACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* * *
37016501 AATTGAACATACATGCCCCTGTTTGTACTTCGATACCCTTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* * * * * * *
37016542 AATTGCATATACGTTCCCCTGTTTATACTTTGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
*
37016583 AATTACACATACGTGCCC
1 AATTGCACATACGTGCCC
37016601 TAATTCAGAT
Statistics
Matches: 83, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
Found at i:37019109 original size:41 final size:41
Alignment explanation
Indices: 37019052--37019427 Score: 466
Period size: 41 Copynumber: 9.2 Consensus size: 41
37019042 TAATTATACT
* *
37019052 TGAATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
37019093 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCA
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
37019134 TAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* **
37019175 TGAATTGCATATTTGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
37019216 TAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
37019257 TAAATTGCATATTCGTGCCCCTATTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
37019298 TAAATTTCACATACGTGCCCCTATTTGTACTTCGGTACCTC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* ** *
37019339 TGAATTGCACATACGTGCCCCTATTTGTACTAGGGTA-CTC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * * *
37019379 TGTATAGCACTTACGTGCCCCTGTTTATACATCTGGTAACCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTC-GGTACCCC
37019421 TGAATTG
1 TGAATTG
37019428 AATAATATAT
Statistics
Matches: 291, Mismatches: 42, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
40 28 0.10
41 257 0.88
42 6 0.02
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:37019176 original size:20 final size:19
Alignment explanation
Indices: 37019069--37019257 Score: 74
Period size: 20 Copynumber: 9.3 Consensus size: 19
37019059 CACATACGTG
*
37019069 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
* * * *
37019089 CCCCTGAATTGCACATACGTG
1 CCCCTG-TTTGTAC-TTCGTA
37019110 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
* ** * * *
37019130 CCCATAAATTGCACATACGTG
1 CCCCT-GTTTGTAC-TTCGTA
37019151 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCG-TA
* * *
37019171 CCCCTGAATTGCATA-TTTGTG
1 CCCCTG-TTTG--TACTTCGTA
37019192 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
** * * *
37019212 CCCCTAAATTGCACATACGTG
1 CCCCT-GTTTGTAC-TTCGTA
37019233 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCG-TA
37019253 CCCCT
1 CCCCT
37019258 AAATTGCATA
Statistics
Matches: 118, Mismatches: 37, Indels: 28
0.64 0.20 0.15
Matches are distributed among these distances:
18 2 0.02
19 10 0.08
20 49 0.42
21 46 0.39
22 9 0.08
23 2 0.02
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (19 bp):
CCCCTGTTTGTACTTCGTA
Found at i:37030280 original size:13 final size:13
Alignment explanation
Indices: 37030264--37030314 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
37030254 TTTAAACCAA
37030264 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
37030277 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
37030290 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
37030303 ATTTTTCAAAAG
1 ACTTTTCAAAAG
37030315 TAATGAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:37032026 original size:6 final size:6
Alignment explanation
Indices: 37032015--37032061 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
37032005 AGCCAAAAAA
* * *
37032015 AAATAT AAATAT AAATAA AAATTT ATATAT AAA-AT AAAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT -AAATAT AAATA
37032062 GCATAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 2 0.06
6 29 0.88
7 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:37032034 original size:18 final size:17
Alignment explanation
Indices: 37032010--37032061 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
37032000 ATGTTAGCCA
37032010 AAAAAAAATATAAATAT
1 AAAAAAAATATAAATAT
* *
37032027 AAATAAAAATTTATATAT
1 AAA-AAAAATATAAATAT
37032045 AAAATAAAATATAAATA
1 AAAA-AAAATATAAATA
37032062 GCATAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAAAATATAAATAT
Found at i:37033054 original size:16 final size:17
Alignment explanation
Indices: 37033020--37033059 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
37033010 TATTTTATAT
*
37033020 AATATAA-TATGTACTA
1 AATATAATTATGTACAA
37033036 AATATAATTATGT-CAA
1 AATATAATTATGTACAA
37033052 AATA-AATT
1 AATATAATT
37033060 CATATCATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (17 bp):
AATATAATTATGTACAA
Found at i:37037088 original size:22 final size:23
Alignment explanation
Indices: 37037049--37037164 Score: 137
Period size: 22 Copynumber: 5.1 Consensus size: 23
37037039 CCCACAAATT
*
37037049 ACAACCAAACATAGCCTCCAAAC
1 ACAACCAAATATAGCCTCCAAAC
*
37037072 ACAACC-AATTTAGCCTCCAAAC
1 ACAACCAAATATAGCCTCCAAAC
* *
37037094 ACAACCAAACATACCCTCC-AAC
1 ACAACCAAATATAGCCTCCAAAC
* *
37037116 ATAACCAAATATAGCCTCCAAGC
1 ACAACCAAATATAGCCTCCAAAC
* * *
37037139 ACCACCAAATATACCCTTCAAAC
1 ACAACCAAATATAGCCTCCAAAC
37037162 ACA
1 ACA
37037165 TCTATTTAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
22 39 0.51
23 37 0.49
ACGTcount: A:0.45, C:0.38, G:0.03, T:0.14
Consensus pattern (23 bp):
ACAACCAAATATAGCCTCCAAAC
Found at i:37037113 original size:45 final size:46
Alignment explanation
Indices: 37037049--37037164 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 46
37037039 CCCACAAATT
* *
37037049 ACAACCAAACATAGCCTCCAAACACAACC-AATTTAGCCTCCAAAC
1 ACAACCAAACATACCCTCCAAACACAACCAAATATAGCCTCCAAAC
* *
37037094 ACAACCAAACATACCCTCC-AACATAACCAAATATAGCCTCCAAGC
1 ACAACCAAACATACCCTCCAAACACAACCAAATATAGCCTCCAAAC
* * *
37037139 ACCACCAAATATACCCTTCAAACACA
1 ACAACCAAACATACCCTCCAAACACA
37037165 TCTATTTAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
44 8 0.13
45 48 0.79
46 5 0.08
ACGTcount: A:0.45, C:0.38, G:0.03, T:0.14
Consensus pattern (46 bp):
ACAACCAAACATACCCTCCAAACACAACCAAATATAGCCTCCAAAC
Found at i:37039371 original size:44 final size:44
Alignment explanation
Indices: 37039308--37039392 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
37039298 GTGTTATATT
*
37039308 TCAAATGATGTAAACATCTTATTGGAGTTTTTATGCCATTTGGC
1 TCAAATGATGTAAACATCTTATTGGAGTTTTTATCCCATTTGGC
*
37039352 TCAAATGATGTAAATATCTTATTGGAGTTTTTATCCCATTT
1 TCAAATGATGTAAACATCTTATTGGAGTTTTTATCCCATTT
37039393 AGGTCATACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (44 bp):
TCAAATGATGTAAACATCTTATTGGAGTTTTTATCCCATTTGGC
Found at i:37045123 original size:231 final size:231
Alignment explanation
Indices: 37044720--37045184 Score: 912
Period size: 231 Copynumber: 2.0 Consensus size: 231
37044710 ACAAAGTAAG
37044720 AATTAAGAATGCTTAGTAAGTTCAAACGGAGTTATTAAACTTACCTTGATCCATTAAAGCATAAA
1 AATTAAGAATGCTTAGTAAGTTCAAACGGAGTTATTAAACTTACCTTGATCCATTAAAGCATAAA
37044785 GAAAATGTCATACATCTTGGCATTCAAAAATGGCCATTCTTGGCACATATTGGCACATCTAAGTA
66 GAAAATGTCATACATCTTGGCATTCAAAAATGGCCATTCTTGGCACATATTGGCACATCTAAGTA
37044850 CATGTCAACATTATCAACTAAATAAGTTAGTCACTTTTACAAATCATGAGAAATATCTAAGACAT
131 CATGTCAACATTATCAACTAAATAAGTTAGTCACTTTTACAAATCATGAGAAATATCTAAGACAT
37044915 TAAGGCACTTCAATACTTATCACATACCACATATCA
196 TAAGGCACTTCAATACTTATCACATACCACATATCA
37044951 AATTAAGAATGCTTAGTAAGTTCAAACGGAGTTATTAAACTTACCTTGATCCATTAAAGCATAAA
1 AATTAAGAATGCTTAGTAAGTTCAAACGGAGTTATTAAACTTACCTTGATCCATTAAAGCATAAA
*
37045016 GAAAATGTCATACGTCTTGGCATTCAAAAATGGCCATTCTTGGCACATATTGGCACATCTAAGTA
66 GAAAATGTCATACATCTTGGCATTCAAAAATGGCCATTCTTGGCACATATTGGCACATCTAAGTA
37045081 CATGTCAACATTATCAACTAAATAAGTTAGTCACTTTTACAAATCATGAGAAATATCTAAGACAT
131 CATGTCAACATTATCAACTAAATAAGTTAGTCACTTTTACAAATCATGAGAAATATCTAAGACAT
*
37045146 TAAGGCACTTCAATACTTATCACATATCACATATCA
196 TAAGGCACTTCAATACTTATCACATACCACATATCA
37045182 AAT
1 AAT
37045185 ATAAAACATA
Statistics
Matches: 232, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
231 232 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (231 bp):
AATTAAGAATGCTTAGTAAGTTCAAACGGAGTTATTAAACTTACCTTGATCCATTAAAGCATAAA
GAAAATGTCATACATCTTGGCATTCAAAAATGGCCATTCTTGGCACATATTGGCACATCTAAGTA
CATGTCAACATTATCAACTAAATAAGTTAGTCACTTTTACAAATCATGAGAAATATCTAAGACAT
TAAGGCACTTCAATACTTATCACATACCACATATCA
Found at i:37048363 original size:25 final size:25
Alignment explanation
Indices: 37048335--37048399 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
37048325 CTGTTTTTGA
*
37048335 TAGTATATCCTAAAACTACTATATG
1 TAGTATATACTAAAACTACTATATG
* * *
37048360 TAGTGTATACTGAGACTACTATA-G
1 TAGTATATACTAAAACTACTATATG
**
37048384 ATAGGCTATACTAAAA
1 -TAGTATATACTAAAA
37048400 ACACTCAAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (25 bp):
TAGTATATACTAAAACTACTATATG
Found at i:37073670 original size:24 final size:24
Alignment explanation
Indices: 37073639--37073686 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
37073629 AATGCATTCA
* *
37073639 TTTGAATTT-TGGAAATTTTATGT
1 TTTGAATTTATGAAAATTGTATGT
37073662 TTTGCAATTTATGAAAATTGTATGT
1 TTTG-AATTTATGAAAATTGTATGT
37073687 GACTATAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 5 0.24
25 12 0.57
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (24 bp):
TTTGAATTTATGAAAATTGTATGT
Found at i:37075613 original size:31 final size:31
Alignment explanation
Indices: 37075570--37075635 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
37075560 AACTCTAATT
** *
37075570 GTTA-TGTAACACCCCTCACCCGATCTAGAA
1 GTTATTGTAACACCCCAAACCCGACCTAGAA
* *
37075600 GTTATTGTCACACCCCAAACCCGACCTAGAC
1 GTTATTGTAACACCCCAAACCCGACCTAGAA
37075631 GTTAT
1 GTTAT
37075636 GGCCGAATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (31 bp):
GTTATTGTAACACCCCAAACCCGACCTAGAA
Found at i:37078771 original size:12 final size:12
Alignment explanation
Indices: 37078756--37078864 Score: 92
Period size: 12 Copynumber: 9.1 Consensus size: 12
37078746 CCAGAGACAA
37078756 ATACAGATGCAG
1 ATACAGATGCAG
**
37078768 ATACAGACCCAG
1 ATACAGATGCAG
* **
37078780 ATATAGATATAG
1 ATACAGATGCAG
*
37078792 ATACAGATGCGG
1 ATACAGATGCAG
* *
37078804 ATACAGATGTAA
1 ATACAGATGCAG
* *
37078816 ACACAGATTCAG
1 ATACAGATGCAG
*
37078828 ATACAAATGCAG
1 ATACAGATGCAG
* *
37078840 ACACAGATTCAG
1 ATACAGATGCAG
*
37078852 TTACAGATGCAG
1 ATACAGATGCAG
37078864 A
1 A
37078865 CACCAATCCT
Statistics
Matches: 70, Mismatches: 27, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
12 70 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.19
Consensus pattern (12 bp):
ATACAGATGCAG
Found at i:37078774 original size:6 final size:6
Alignment explanation
Indices: 37078756--37078864 Score: 56
Period size: 6 Copynumber: 18.2 Consensus size: 6
37078746 CCAGAGACAA
* ** * * * *
37078756 ATACAG ATGCAG ATACAG ACCCAG ATATAG ATATAG ATACAG ATGCGG
1 ATACAG ATACAG ATACAG ATACAG ATACAG ATACAG ATACAG ATACAG
** * * * * * * *
37078804 ATACAG ATGTAA ACACAG ATTCAG ATACAA ATGCAG ACACAG ATTCAG
1 ATACAG ATACAG ATACAG ATACAG ATACAG ATACAG ATACAG ATACAG
* *
37078852 TTACAG ATGCAG A
1 ATACAG ATACAG A
37078865 CACCAATCCT
Statistics
Matches: 70, Mismatches: 33, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.19
Consensus pattern (6 bp):
ATACAG
Found at i:37079078 original size:25 final size:27
Alignment explanation
Indices: 37079019--37079078 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 27
37079009 TGCGGTAAAT
37079019 TACCA-AAATCAAATAAGTGTGGTCAA
1 TACCACAAATCAAATAAGTGTGGTCAA
* *
37079045 -GCCATCAAATCAAAT-A-TGTGGTTAA
1 TACCA-CAAATCAAATAAGTGTGGTCAA
37079070 TACCACAAA
1 TACCACAAA
37079079 ATAAGTCATC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
25 15 0.54
26 4 0.14
27 9 0.32
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (27 bp):
TACCACAAATCAAATAAGTGTGGTCAA
Found at i:37080678 original size:21 final size:21
Alignment explanation
Indices: 37080654--37080696 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
37080644 GAGATATCAA
37080654 AAATACAGTAGGTGATAAGGT
1 AAATACAGTAGGTGATAAGGT
37080675 AAATACAGTAGGTGATAAGGT
1 AAATACAGTAGGTGATAAGGT
37080696 A
1 A
37080697 TTCTTGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATACAGTAGGTGATAAGGT
Found at i:37082181 original size:15 final size:15
Alignment explanation
Indices: 37082161--37082193 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
37082151 AGATACAATT
37082161 TTTTTAATTT-TTTAA
1 TTTTT-ATTTGTTTAA
37082176 TTTTTATTTGTTTAA
1 TTTTTATTTGTTTAA
37082191 TTT
1 TTT
37082194 ATTTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTATTTGTTTAA
Found at i:37085778 original size:24 final size:23
Alignment explanation
Indices: 37085745--37085789 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
37085735 ATTCTGAACA
37085745 TTTTTATTT-ATTTATATTTGGAC
1 TTTTTATTTAATTT-TATTTGGAC
37085768 TTTTTACTTTAATTTTATTTGG
1 TTTTTA-TTTAATTTTATTTGG
37085790 GATGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (23 bp):
TTTTTATTTAATTTTATTTGGAC
Found at i:37087704 original size:32 final size:32
Alignment explanation
Indices: 37087664--37087787 Score: 158
Period size: 32 Copynumber: 3.9 Consensus size: 32
37087654 ATAAGTATAA
* * *
37087664 TAATATGATTGGCATAAAGCCATCAGTAGCAG
1 TAATATGATCGGCACAAAGCCATCAGTAACAG
* * * *
37087696 TGATATGATCAGCACACAGCCATCAGTAATAG
1 TAATATGATCGGCACAAAGCCATCAGTAACAG
* *
37087728 TAATATGATCGGTACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACAG
*
37087760 TAATATAATCGGCACAAAGCCATCAGTA
1 TAATATGATCGGCACAAAGCCATCAGTA
37087788 GCATCGTAGC
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACAG
Found at i:37087750 original size:64 final size:64
Alignment explanation
Indices: 37087649--37087787 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 64
37087639 GAATGGCTAC
* * * * * *
37087649 AAGCCATAAGT-ATAATAATATGATTGGCATAAAGCCATCAGTAGCAGTGATATGATCAGCACA
1 AAGCCATCAGTAATAATAATATGATCGGCACAAAGCCATCAGTAACAGTAATATAATCAGCACA
* * * * *
37087712 CAGCCATCAGTAATAGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATATAATCGGCACA
1 AAGCCATCAGTAATAATAATATGATCGGCACAAAGCCATCAGTAACAGTAATATAATCAGCACA
37087776 AAGCCATCAGTA
1 AAGCCATCAGTA
37087788 GCATCGTAGC
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
63 9 0.14
64 54 0.86
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (64 bp):
AAGCCATCAGTAATAATAATATGATCGGCACAAAGCCATCAGTAACAGTAATATAATCAGCACA
Found at i:37087982 original size:11 final size:11
Alignment explanation
Indices: 37087966--37088011 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
37087956 CAGAATCAGT
37087966 CATACAAATCA
1 CATACAAATCA
37087977 CATACAAATCAA
1 CATACAAATC-A
*
37087989 TCATACTAATCA
1 -CATACAAATCA
*
37088001 CAGACAAATCA
1 CATACAAATCA
37088012 ATCATTTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 19 0.63
12 2 0.07
13 9 0.30
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.20
Consensus pattern (11 bp):
CATACAAATCA
Found at i:37087992 original size:24 final size:24
Alignment explanation
Indices: 37087959--37088040 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
37087949 CCATGCTCAG
* *
37087959 AATCAGTCATACAAATCACATACA
1 AATCAATCATACAAATCACAGACA
*
37087983 AATCAATCATACTAATCACAGACA
1 AATCAATCATACAAATCACAGACA
** * *
37088007 AATCAATCATTTACATCACGGACA
1 AATCAATCATACAAATCACAGACA
*
37088031 AATAAATCAT
1 AATCAATCAT
37088041 TTACACTCGA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (24 bp):
AATCAATCATACAAATCACAGACA
Found at i:37088041 original size:24 final size:24
Alignment explanation
Indices: 37087973--37088045 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
37087963 AGTCATACAA
* *
37087973 ATCACATACAAATCAATCATACTA-
1 ATCACAGACAAATCAATCAT-TTAC
37087997 ATCACAGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
* *
37088021 ATCACGGACAAATAAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
37088045 A
1 A
37088046 CTCGAGAGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.25
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:37088114 original size:27 final size:27
Alignment explanation
Indices: 37088060--37088444 Score: 237
Period size: 27 Copynumber: 14.4 Consensus size: 27
37088050 AGAGGAAAAA
* * * *
37088060 GTCA-TTTACCCTTCAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTTCG
* *
37088086 GTCATTTTACCTTACAGTGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTTCG
* * *
37088113 GTCATTTAACCCTA-TGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTTCG
* *
37088139 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTTCG
* **
37088166 GTTATTTTACCCTATGGGGGT-TTTCG
1 GTCATTTTACCCTACAGGGGTATTTCG
*
37088192 GT-ATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTTCG
**
37088218 GTCATTTTA-CCTATCAATGGTA-TTCTG
1 GTCATTTTACCCTA-CAGGGGTATTTC-G
* * *
37088245 ATAATTTTA-TCTATC-GAGGGTATTTCG
1 GTCATTTTACCCTA-CAG-GGGTATTTCG
* *
37088272 GTCATTTTACCC-ATTAGGGGTATTT-T
1 GTCATTTTACCCTA-CAGGGGTATTTCG
** **
37088298 GAAATTTTACCC-ATC-GAGGGTATTTTA
1 GTCATTTTACCCTA-CAG-GGGTATTTCG
* *
37088325 GTCATTTTACCC-ATC-GAGGATAATTCG
1 GTCATTTTACCCTA-CAG-GGGTATTTCG
* * *
37088352 GTCATTTTACCCTTCAGGGGTAATTCA
1 GTCATTTTACCCTACAGGGGTATTTCG
* * *
37088379 GTCATTTTACCCTTCAGGGGTAATTCA
1 GTCATTTTACCCTACAGGGGTATTTCG
37088406 GTCATTTTACCCCT-C-GAGGGTAATTT-G
1 GTCATTTTA-CCCTACAG-GGGT-ATTTCG
37088433 GTCATTTTACCC
1 GTCATTTTACCC
37088445 CTCGGGGGTA
Statistics
Matches: 292, Mismatches: 50, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
25 17 0.06
26 68 0.23
27 194 0.66
28 13 0.04
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTTCG
Found at i:37088118 original size:53 final size:53
Alignment explanation
Indices: 37088060--37088224 Score: 167
Period size: 53 Copynumber: 3.1 Consensus size: 53
37088050 AGAGGAAAAA
* * * *
37088060 GTCATTTACCCTTCA-AGGGCATTACGGTCATTTTACCTTACAGTGGTATTTCG
1 GTCATTTACCCTT-ATAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACG
* *
37088113 GTCATTTAACCC-TATGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
1 GTCATTT-ACCCTTATAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACG
* * ** * *
37088166 GTTATTTTACCC-TATGGGGGTTTTCGGT-ATTTTACCCTACAGGGGTATTACG
1 GTCA-TTTACCCTTATAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACG
37088218 GTCATTT
1 GTCATTT
37088225 TACCTATCAA
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
51 3 0.03
52 27 0.28
53 60 0.62
54 7 0.07
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (53 bp):
GTCATTTACCCTTATAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACG
Found at i:37088252 original size:79 final size:80
Alignment explanation
Indices: 37088060--37088444 Score: 244
Period size: 80 Copynumber: 4.8 Consensus size: 80
37088050 AGAGGAAAAA
* * * *
37088060 GTCA-TTTACCCTTCAAGGGCATTACGGTCATTTTACCT-TAC-AGTGGTATTTCGGTCATTTAA
1 GTCATTTTACCCTACAAGGGCATTACGATAATTTTACCTAT-CGAG-GGTATTTCGGTCATTTTA
*
37088122 CCCTATGGGGTATTACG
64 CCCTAAGGGGTATTACG
* * * *
37088139 GTCATTTTACCCTACAGGGGCATTACGGTTATTTTACCCTAT-GGGGGT-TTTCGGT-ATTTTAC
1 GTCATTTTACCCTACAAGGGCATTACGATAATTTTA-CCTATCGAGGGTATTTCGGTCATTTTAC
37088201 CCTACAGGGGTATTACG
65 CCTA-AGGGGTATTACG
* * *
37088218 GTCATTTTA-CCTATCAATGGTATT-CTGATAATTTTATCTATCGAGGGTATTTCGGTCATTTTA
1 GTCATTTTACCCTA-CAAGGGCATTAC-GATAATTTTACCTATCGAGGGTATTTCGGTCATTTTA
* **
37088281 CCCATTAGGGGTATT-TT
64 CCC-TAAGGGGTATTACG
** * * * * * *
37088298 GAAATTTTACCC-ATCGAGGGTATTTTA-G-TCATTTTACCCATCGAGGATAATTCGGTCATTTT
1 GTCATTTTACCCTA-CAAGGGCA--TTACGATAATTTTACCTATCGAGGGTATTTCGGTCATTTT
* *
37088360 ACCCTTCAGGGGTAATT-CA
63 ACCC-TAAGGGGT-ATTACG
* * * * **
37088379 GTCATTTTACCCTTCAGGGGTAATT-C-AGTCATTTTACCCCTCGAGGGTAATTT-GGTCATTTT
1 GTCATTTTACCCTACAAGGG-CATTACGA-TAATTTTACCTATCGAGGGT-ATTTCGGTCATTTT
37088441 ACCC
63 ACCC
37088445 CTCGGGGGTA
Statistics
Matches: 246, Mismatches: 38, Indels: 42
0.75 0.12 0.13
Matches are distributed among these distances:
78 19 0.08
79 51 0.21
80 95 0.39
81 73 0.30
82 8 0.03
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (80 bp):
GTCATTTTACCCTACAAGGGCATTACGATAATTTTACCTATCGAGGGTATTTCGGTCATTTTACC
CTAAGGGGTATTACG
Found at i:37088423 original size:81 final size:80
Alignment explanation
Indices: 37088104--37088466 Score: 278
Period size: 81 Copynumber: 4.5 Consensus size: 80
37088094 ACCTTACAGT
* * * * * *
37088104 GGTATTTCGGTCATTTAACCC-T-ATGGGGTATTACGGTCATTTTACCCTACAGGGG-CATTACG
1 GGTAATTCGGTCATTTTACCCTTCA-GGGGTATT-CAGTCATTTTACCCTTCAGGGGTAATT-CA
* *
37088166 GTTATTTTACCCTAT-GGG
63 GTCATTTTACCC-ATCGAG
* * * ** *
37088184 GGT-TTTCGGT-ATTTTACCCTACAGGGGTATTACGGTCATTTTA-CCTATCAATGGT-ATTCTG
1 GGTAATTCGGTCATTTTACCCTTCAGGGGTATT-CAGTCATTTTACCCT-TCAGGGGTAATTCAG
* * *
37088245 ATAATTTTATCTATCGAG
64 -TCATTTTACCCATCGAG
* ** ** * * *
37088263 GGTATTTCGGTCATTTTACCCATT-AGGGGTATTTTGAAATTTTACCCATC-GAGGGTATTTTAG
1 GGTAATTCGGTCATTTTACCC-TTCAGGGGTATTCAGTCATTTTACCCTTCAG-GGGTAATTCAG
37088326 TCATTTTACCCATCGAG
64 TCATTTTACCCATCGAG
*
37088343 GATAATTCGGTCATTTTACCCTTCAGGGGTAATTCAGTCATTTTACCCTTCAGGGGTAATTCAGT
1 GGTAATTCGGTCATTTTACCCTTCAGGGGT-ATTCAGTCATTTTACCCTTCAGGGGTAATTCAGT
*
37088408 CATTTTACCCCTCGAG
65 CATTTTACCCATCGAG
* * * *
37088424 GGTAATTTGGTCATTTTACCCCTCGGGGGTAATTCAATCATTT
1 GGTAATTCGGTCATTTTACCCTTCAGGGGT-ATTCAGTCATTT
37088467 AACAAATATT
Statistics
Matches: 229, Mismatches: 39, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
78 15 0.07
79 49 0.21
80 62 0.27
81 101 0.44
82 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (80 bp):
GGTAATTCGGTCATTTTACCCTTCAGGGGTATTCAGTCATTTTACCCTTCAGGGGTAATTCAGTC
ATTTTACCCATCGAG
Found at i:37088445 original size:27 final size:27
Alignment explanation
Indices: 37088248--37088466 Score: 178
Period size: 27 Copynumber: 8.1 Consensus size: 27
37088238 TATTCTGATA
* * *
37088248 ATTTTATCTATCGAGGGT-ATTTCGGTC
1 ATTTTACCCATCGAGGGTAATTT-AGTC
* * **
37088275 ATTTTACCCAT-TAGGGGT-ATTTTGAA
1 ATTTTACCCATCGA-GGGTAATTTAGTC
*
37088301 ATTTTACCCATCGAGGGTATTTTAGTC
1 ATTTTACCCATCGAGGGTAATTTAGTC
* **
37088328 ATTTTACCCATCGAGGATAATTCGGTC
1 ATTTTACCCATCGAGGGTAATTTAGTC
* *
37088355 ATTTTACCCTTC-AGGGGTAATTCAGTC
1 ATTTTACCCATCGA-GGGTAATTTAGTC
* *
37088382 ATTTTACCCTTC-AGGGGTAATTCAGTC
1 ATTTTACCCATCGA-GGGTAATTTAGTC
* *
37088409 ATTTTACCCCTCGAGGGTAATTTGGTC
1 ATTTTACCCATCGAGGGTAATTTAGTC
* * * *
37088436 ATTTTACCCCTCGGGGGTAATTCAATC
1 ATTTTACCCATCGAGGGTAATTTAGTC
37088463 ATTT
1 ATTT
37088467 AACAAATATT
Statistics
Matches: 162, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 18 0.11
27 143 0.88
28 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTAATTTAGTC
Found at i:37088453 original size:54 final size:54
Alignment explanation
Indices: 37088248--37088466 Score: 212
Period size: 54 Copynumber: 4.1 Consensus size: 54
37088238 TATTCTGATA
* * * * ** **
37088248 ATTTTATCTATCGAGGGT-ATTTCGGTCATTTTACCCATTAGGGGT-ATTTTGAA
1 ATTTTACCCATCGAGGGTAATTT-AGTCATTTTACCCATCAGGGGTAATTCAGTC
* * *
37088301 ATTTTACCCATCGAGGGTATTTTAGTCATTTTACCCATC-GAGGATAATTCGGTC
1 ATTTTACCCATCGAGGGTAATTTAGTCATTTTACCCATCAG-GGGTAATTCAGTC
* * *
37088355 ATTTTACCCTTC-AGGGGTAATTCAGTCATTTTACCCTTCAGGGGTAATTCAGTC
1 ATTTTACCCATCGA-GGGTAATTTAGTCATTTTACCCATCAGGGGTAATTCAGTC
* * * * *
37088409 ATTTTACCCCTCGAGGGTAATTTGGTCATTTTACCCCTCGGGGGTAATTCAATC
1 ATTTTACCCATCGAGGGTAATTTAGTCATTTTACCCATCAGGGGTAATTCAGTC
37088463 ATTT
1 ATTT
37088467 AACAAATATT
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 34 0.25
54 101 0.73
55 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (54 bp):
ATTTTACCCATCGAGGGTAATTTAGTCATTTTACCCATCAGGGGTAATTCAGTC
Found at i:37089134 original size:12 final size:13
Alignment explanation
Indices: 37089117--37089145 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
37089107 ACTAAAACTT
37089117 AAAAGAAAGAAA-
1 AAAAGAAAGAAAG
37089129 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
37089142 AAAA
1 AAAA
37089146 AACCTAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:37090067 original size:41 final size:41
Alignment explanation
Indices: 37089987--37090095 Score: 121
Period size: 41 Copynumber: 2.7 Consensus size: 41
37089977 TCGGGCTCTG
* * *
37089987 TGCCTAGCAAGCTTTATGCCGGTGAATTATAGCAGGCTTTA
1 TGCCTAGCAGGCTTTATGCCGGTGTATCATAGCAGGCTTTA
** * *
37090028 TGCCTAGCAGGCTTCGTGCCGGTGTATCATATCTA-GCTTTG
1 TGCCTAGCAGGCTTTATGCCGGTGTATCATAGC-AGGCTTTA
* *
37090069 TGCCTAGAAGGATTTATGCCGGTGTAT
1 TGCCTAGCAGGCTTTATGCCGGTGTAT
37090096 TTTAATAAGC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 55 0.98
42 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (41 bp):
TGCCTAGCAGGCTTTATGCCGGTGTATCATAGCAGGCTTTA
Found at i:37090788 original size:12 final size:12
Alignment explanation
Indices: 37090771--37090796 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37090761 TTATATCTCG
37090771 TGTCTAGAAATA
1 TGTCTAGAAATA
37090783 TGTCTAGAAATA
1 TGTCTAGAAATA
37090795 TG
1 TG
37090797 GTGTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (12 bp):
TGTCTAGAAATA
Found at i:37093204 original size:8 final size:8
Alignment explanation
Indices: 37093191--37093215 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37093181 GGAAAACGAA
37093191 AGTAGTCG
1 AGTAGTCG
37093199 AGTAGTCG
1 AGTAGTCG
37093207 AGTAGTCG
1 AGTAGTCG
37093215 A
1 A
37093216 TTGTGTCCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.24
Consensus pattern (8 bp):
AGTAGTCG
Found at i:37094175 original size:41 final size:40
Alignment explanation
Indices: 37094107--37094265 Score: 149
Period size: 41 Copynumber: 3.9 Consensus size: 40
37094097 TGAAAATAAG
* * *
37094107 ATGTTTCAGACTTTACGTCCAAGAGGCTTGATGCCGATGAA
1 ATGTTTCAGACTTTATGT-CTACAGGCTTGATGCCGATGAA
37094148 ATGTTTCAGACTTTATGTCTACTAGGCTTGATGCCGATGAA
1 ATGTTTCAGACTTTATGTCTAC-AGGCTTGATGCCGATGAA
* ** *
37094189 TTACTTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
1 ATGTTTCAGACTTTATGTCTA-CAGGC-TTGATGCCGATGAA
* * * * * *
37094230 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCG
1 ATGTTTCAGACTTTATGTCTA-CAGGCTTGATGCCG
37094266 GTGTTTTATA
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.04
41 90 0.92
42 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (40 bp):
ATGTTTCAGACTTTATGTCTACAGGCTTGATGCCGATGAA
Found at i:37094257 original size:82 final size:82
Alignment explanation
Indices: 37094111--37094265 Score: 181
Period size: 82 Copynumber: 1.9 Consensus size: 82
37094101 AATAAGATGT
* *
37094111 TTCAGACTTTACGTCCAAGAGGCTTGATGCCGATGAAATGTTTCAGACTTTATGTCTACTAGGCT
1 TTCAGACTTTACGTCCAAGAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTACTAGGCT
37094176 TGATGCCGATGAATTAC
66 TGATGCCGATGAATTAC
* * * * * *
37094193 TTCAGACTTTATGT-CTAGCAGGCTTTG-TGCCGGTGAAATGTATCGGGCTTTGTGCCTAGC-AG
1 TTCAGACTTTACGTCCAAG-AGGC-TTGATGCCGATGAAATGTATCAGACTTTATGCCTA-CTAG
*
37094255 GCTTTATGCCG
63 GCTTGATGCCG
37094266 GTGTTTTATA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
81 3 0.05
82 54 0.89
83 4 0.07
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (82 bp):
TTCAGACTTTACGTCCAAGAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTACTAGGCT
TGATGCCGATGAATTAC
Found at i:37096185 original size:74 final size:74
Alignment explanation
Indices: 37096064--37096213 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
37096054 GTTCTGCAGA
37096064 GAAAGAAAAATGAAACCAAAAAGAAAGTTACCTATACGGCAAATGAAGGAATGAGGAGAAGTAGT
1 GAAAGAAAAATGAAACCAAAAAGAAAGTTACCTATACGGCAAATGAAGGAATGAGGAGAAGTAGT
37096129 GGAAATTTT
66 GGAAATTTT
37096138 GAAAGAAAAATGAAACCAAAAAGAAAGTTACCTATACGGCAAATGAAGGAATGAGGAGAAGTAGT
1 GAAAGAAAAATGAAACCAAAAAGAAAGTTACCTATACGGCAAATGAAGGAATGAGGAGAAGTAGT
37096203 GGAAATTTT
66 GGAAATTTT
37096212 GA
1 GA
37096214 TCACTTCAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.50, C:0.08, G:0.25, T:0.17
Consensus pattern (74 bp):
GAAAGAAAAATGAAACCAAAAAGAAAGTTACCTATACGGCAAATGAAGGAATGAGGAGAAGTAGT
GGAAATTTT
Found at i:37098207 original size:46 final size:46
Alignment explanation
Indices: 37098140--37098227 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
37098130 CAATATGCAG
* * *
37098140 TGTGGGCCTTAGCCCATTACAGT-ATCAGAATCAGAAATAGAATACA
1 TGTGGGCCTAAGCCCAATACAGTGA-CAAAATCAGAAATAGAATACA
*
37098186 TGTGGGCCTAAGCCCAATACAGTGACAAAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCAATACAGTGACAAAATCAGAAATAGAA
37098228 ACGCAACAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 36 0.97
47 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCAATACAGTGACAAAATCAGAAATAGAATACA
Found at i:37098498 original size:32 final size:31
Alignment explanation
Indices: 37098443--37098581 Score: 118
Period size: 32 Copynumber: 4.4 Consensus size: 31
37098433 GAACGCCTAC
*
37098443 AAGCCATAAGT-ACAGTAATATGATTAGCACA
1 AAGCCATCAGTAACAGTAATATGA-TAGCACA
* * * *
37098474 AAGCCATCAGTAGCAGTGATATGATCGATACA
1 AAGCCATCAGTAACAGTAATATGATAG-CACA
* ** * *
37098506 CAGCCATCAGTAATGGTAATATGATAGGTATA
1 AAGCCATCAGTAACAGTAATATGATA-GCACA
** *
37098538 AAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGAT-AGCACA
37098570 AAGCCATCAGTA
1 AAGCCATCAGTA
37098582 GCATCGCAGC
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
31 12 0.14
32 75 0.85
33 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (31 bp):
AAGCCATCAGTAACAGTAATATGATAGCACA
Found at i:37098753 original size:24 final size:24
Alignment explanation
Indices: 37098726--37098807 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
37098716 ACATTTTCAG
* *
37098726 AATCAGTCATACGAATCACAGACA
1 AATCAGTCATACAAATCATAGACA
*
37098750 AATCAGTCATACCAATCATAGACA
1 AATCAGTCATACAAATCATAGACA
**
37098774 AATCAGTCATTTAAATCATAGACA
1 AATCAGTCATACAAATCATAGACA
*
37098798 AATCAATCAT
1 AATCAGTCAT
37098808 TTACATCACG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATCATAGACA
Found at i:37098808 original size:24 final size:24
Alignment explanation
Indices: 37098739--37098834 Score: 102
Period size: 24 Copynumber: 4.0 Consensus size: 24
37098729 CAGTCATACG
* ***
37098739 AATCACAGACAAATCAGTCATACC
1 AATCACAGACAAATCAATCATTTA
* *
37098763 AATCATAGACAAATCAGTCATTTA
1 AATCACAGACAAATCAATCATTTA
*
37098787 AATCATAGACAAATCAATCATTTA
1 AATCACAGACAAATCAATCATTTA
* * *
37098811 CATCACGGACAAATAAATCATTTA
1 AATCACAGACAAATCAATCATTTA
37098835 CACTCGAAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.25
Consensus pattern (24 bp):
AATCACAGACAAATCAATCATTTA
Found at i:37098910 original size:27 final size:27
Alignment explanation
Indices: 37098880--37099187 Score: 142
Period size: 27 Copynumber: 11.4 Consensus size: 27
37098870 GGCATTACGG
* *
37098880 TCATTTTACCTTACAGTGGTATTTCGA
1 TCATTTTACCCTACAGGGGTATTTCGA
* ** *
37098907 TCATTTAACCCTATGGGGGTATTAT-GG
1 TCATTTTACCCTACAGGGGTATT-TCGA
** *
37098934 TCATTTTACCCTATGGGGGTTTTTCGA
1 TCATTTTACCCTACAGGGGTATTTCGA
*
37098961 TCATTTTACCCTACAGGGGTATTACGA
1 TCATTTTACCCTACAGGGGTATTTCGA
* *
37098988 TTATTTTA-CCTATC-GAGGGTATTTCAA
1 TCATTTTACCCTA-CAG-GGGTATTTCGA
* * *
37099015 TCATTTTACCC-ATCAAGGGTATTTTGG
1 TCATTTTACCCTA-CAGGGGTATTTCGA
* * *
37099042 TAATTTTACCC-ATCAAGGGTATTT-TA
1 TCATTTTACCCTA-CAGGGGTATTTCGA
*
37099068 GTAATTTTACCC-ATC-GAGGGTATTTC-A
1 -TCATTTTACCCTA-CAG-GGGTATTTCGA
* *
37099095 GTAATTTTACCC-ATC-GAGGGTAATTC-A
1 -TCATTTTACCCTA-CAG-GGGTATTTCGA
* *
37099122 GTCATTTTACCCTTC-GGAGGTAATTC-A
1 -TCATTTTACCCTACAGG-GGTATTTCGA
** *
37099149 GTCATTTTACCCTATGGGGGTAATTT-GG
1 -TCATTTTACCCTACAGGGGT-ATTTCGA
37099177 TCATTTTACCC
1 TCATTTTACCC
37099188 CTCGAAGCTA
Statistics
Matches: 235, Mismatches: 32, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.03
27 220 0.94
28 8 0.03
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTTCGA
Found at i:37098936 original size:54 final size:52
Alignment explanation
Indices: 37098873--37099159 Score: 163
Period size: 54 Copynumber: 5.3 Consensus size: 52
37098863 CTTTAAGGGC
* *
37098873 ATTACGGTCATTTTACCTTACAGTGGTATTTCGATCATTTAACCCTATGGGGGT
1 ATTACGGTCATTTTACC-TACAG-GGTATTTCGATCATTTTACCCTATAGGGGT
* ** * *
37098927 ATTATGGTCATTTTACCCTATGGGGGTTTTTCGATCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTA-CCTA-CAGGGTATTTCGATCATTTTACCCTATAGGGGT
* * * *
37098981 ATTACGATTATTTTACCTATCGAGGGTATTTCAATCATTTTACCC-ATCAAGGGT
1 ATTACGGTCATTTTACCTA-C-AGGGTATTTCGATCATTTTACCCTAT-AGGGGT
** * * * * *
37099035 ATTTTGGTAATTTTACCCATCAAGGGTATTT-TAGTAATTTTACCC-ATCGAGGGT
1 ATTACGGTCATTTTACCTA-C-AGGGTATTTCGA-TCATTTTACCCTATAG-GGGT
* * * * * *
37099089 ATTTCAGTAATTTTACCCATCGAGGGTAATTC-AGTCATTTTACCCT-TCGGAGGT
1 ATTACGGTCATTTTACCTA-C-AGGGTATTTCGA-TCATTTTACCCTATAGG-GGT
*
37099143 AATT-CAGTCATTTTACC
1 -ATTACGGTCATTTTACC
37099160 CTATGGGGGT
Statistics
Matches: 191, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
53 8 0.04
54 177 0.93
55 6 0.03
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (52 bp):
ATTACGGTCATTTTACCTACAGGGTATTTCGATCATTTTACCCTATAGGGGT
Found at i:37099019 original size:81 final size:81
Alignment explanation
Indices: 37098880--37099134 Score: 211
Period size: 81 Copynumber: 3.1 Consensus size: 81
37098870 GGCATTACGG
* * * * * * *
37098880 TCATTTTACCTTACAGTGGTATTTCGATCATTTAACCCTAT-GGGGGTATTAT-GGTCATTTTAC
1 TCATTTTACCCTACAGGGGTATTACGATAATTTTA-CCTATCGAGGGTATT-TCAGTCATTTTAC
**
37098943 CCTAT-GGGGGT-TTTTCGA
64 CC-ATCAAGGGTATTTT-GA
* *
37098961 TCATTTTACCCTACAGGGGTATTACGATTATTTTACCTATCGAGGGTATTTCAATCATTTTACCC
1 TCATTTTACCCTACAGGGGTATTACGATAATTTTACCTATCGAGGGTATTTCAGTCATTTTACCC
*
37099026 ATCAAGGGTATTTTGG
66 ATCAAGGGTATTTTGA
* * * *
37099042 TAATTTTACCC-ATCAAGGGTATTTTA-G-TAATTTTACCCATCGAGGGTATTTCAGTAATTTTA
1 TCATTTTACCCTA-CAGGGGTA--TTACGATAATTTTACCTATCGAGGGTATTTCAGTCATTTTA
* * *
37099104 CCCATCGAGGGTA-ATTCA
63 CCCATCAAGGGTATTTTGA
37099122 GTCATTTTACCCT
1 -TCATTTTACCCT
37099135 TCGGAGGTAA
Statistics
Matches: 143, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
80 11 0.08
81 124 0.87
82 5 0.03
83 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (81 bp):
TCATTTTACCCTACAGGGGTATTACGATAATTTTACCTATCGAGGGTATTTCAGTCATTTTACCC
ATCAAGGGTATTTTGA
Found at i:37099156 original size:81 final size:81
Alignment explanation
Indices: 37098990--37099209 Score: 230
Period size: 81 Copynumber: 2.7 Consensus size: 81
37098980 TATTACGATT
* * * * ** *
37098990 ATTTTACCTATCGAGGGTATTTCAATCATTTTACCCATCAAGGGTATTTTGGTAATTTTACCCAT
1 ATTTTACCCATCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTAATTCAGTCATTTTACCCAT
* *
37099055 CAAGGGTATTTTAGTA
66 CAAGGGTAATTCAGTA
* *
37099071 ATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCGAGGGTAATTCAGTCATTTTACCCTT
1 ATTTTACCCATCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTAATTCAGTCATTTTACCCAT
* *
37099136 C-GGAGGTAATTCAGTC
66 CAAG-GGTAATTCAGTA
* * * * *
37099152 ATTTTACCCTAT-GGGGGTAATTT-GGTCATTTTACCCCTCGAAGCTAATTCAGTCATTT
1 ATTTTACCC-ATCGAGGGT-ATTTCAGTCATTTTACCCATCGAGGGTAATTCAGTCATTT
37099210 AACAAATATT
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 110 0.94
82 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (81 bp):
ATTTTACCCATCGAGGGTATTTCAGTCATTTTACCCATCGAGGGTAATTCAGTCATTTTACCCAT
CAAGGGTAATTCAGTA
Found at i:37099160 original size:54 final size:54
Alignment explanation
Indices: 37098990--37099209 Score: 203
Period size: 54 Copynumber: 4.1 Consensus size: 54
37098980 TATTACGATT
* * * * **
37098990 ATTTTACCTATCGAGGGTATTTCAATCATTTTACCCATCAAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTAATTCAGTCATTTTACCCATCAAGGGTAATTCAGTA
* * * * * *
37099044 ATTTTACCCATCAAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCAGTA
1 ATTTTACCCATCGAGGGTAATTCAGTCATTTTACCCATCAAGGGTAATTCAGTA
* * *
37099098 ATTTTACCCATCGAGGGTAATTCAGTCATTTTACCCTTC-GGAGGTAATTCAGTC
1 ATTTTACCCATCGAGGGTAATTCAGTCATTTTACCCATCAAG-GGTAATTCAGTA
* ** * * *
37099152 ATTTTACCCTAT-GGGGGTAATTTGGTCATTTTACCCCTCGAA-GCTAATTCAGTC
1 ATTTTACCC-ATCGAGGGTAATTCAGTCATTTTACCCATC-AAGGGTAATTCAGTA
37099206 ATTT
1 ATTT
37099210 AACAAATATT
Statistics
Matches: 140, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 137 0.98
55 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (54 bp):
ATTTTACCCATCGAGGGTAATTCAGTCATTTTACCCATCAAGGGTAATTCAGTA
Found at i:37099744 original size:8 final size:8
Alignment explanation
Indices: 37099731--37099766 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
37099721 AATCATCGTA
37099731 TTTTTGGC
1 TTTTTGGC
37099739 TTTTTGGC
1 TTTTTGGC
37099747 TTTTTGGC
1 TTTTTGGC
*
37099755 TTTTCGGC
1 TTTTTGGC
37099763 TTTT
1 TTTT
37099767 GCCGATTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.14, G:0.22, T:0.64
Consensus pattern (8 bp):
TTTTTGGC
Found at i:37106940 original size:159 final size:159
Alignment explanation
Indices: 37106744--37107055 Score: 493
Period size: 159 Copynumber: 2.0 Consensus size: 159
37106734 AAAGATACAT
* * *
37106744 AATTTAAAACATTATGGTTCTAAAGGACCTAAGTGAATATGTGCATACCATGTTTTAATTACAAG
1 AATTTAAAACATTACGGTTCTAAAAGACCTAAGTGAATATGTGCATACCATGTTTTAAATA-AAG
*
37106809 -TTTTATATGCTTGATGATAAGAATATA-ACATTGTTTCTTTATTGAAATTATCGTACGTAGTTA
65 TTTTTATATGCTTGATGATAAGAATA-ACACATTGTTTCTTTATTGAAATTATCATACGTAGTTA
* *
37106872 AAATCGATGCCATTCTATTGAAAGATGTAAG
129 AAATCGATGCCAGTCTATCGAAAGATGTAAG
* * * *
37106903 AATTTAGAACATTGCGGTTCTAAAATACCTAAGTGAATATGTGCATACCATGTTTTAAATATAGT
1 AATTTAAAACATTACGGTTCTAAAAGACCTAAGTGAATATGTGCATACCATGTTTTAAATAAAGT
*
37106968 TTTTATATGCTTGATGATGAGAATAACACATTGTTTCTTTATTGAAATTATCATACGTAGTTAAA
66 TTTTATATGCTTGATGATAAGAATAACACATTGTTTCTTTATTGAAATTATCATACGTAGTTAAA
37107033 ATCGATGCCAGTCTATCGAAAGA
131 ATCGATGCCAGTCTATCGAAAGA
37107056 CAAAGGGAAA
Statistics
Matches: 140, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
158 3 0.02
159 137 0.98
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (159 bp):
AATTTAAAACATTACGGTTCTAAAAGACCTAAGTGAATATGTGCATACCATGTTTTAAATAAAGT
TTTTATATGCTTGATGATAAGAATAACACATTGTTTCTTTATTGAAATTATCATACGTAGTTAAA
ATCGATGCCAGTCTATCGAAAGATGTAAG
Found at i:37108824 original size:13 final size:13
Alignment explanation
Indices: 37108806--37108882 Score: 136
Period size: 13 Copynumber: 5.9 Consensus size: 13
37108796 AGTTCTTCAT
37108806 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
37108819 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
37108832 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
37108845 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
37108858 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
37108871 TGCTTTTGAGAA
1 TGCTTTTGAGAA
37108883 ATTTGAGTGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 60 1.00
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:37111535 original size:32 final size:32
Alignment explanation
Indices: 37111494--37111555 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
37111484 AAGGTTAACA
37111494 TATTTAATATTTATATATAAATATAGGATAGT
1 TATTTAATATTTATATATAAATATAGGATAGT
37111526 TATTTAATATTTATATATAAATATAGGATA
1 TATTTAATATTTATATATAAATATAGGATA
37111556 ATCATGGGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
TATTTAATATTTATATATAAATATAGGATAGT
Found at i:37112241 original size:84 final size:85
Alignment explanation
Indices: 37112132--37112301 Score: 333
Period size: 84 Copynumber: 2.0 Consensus size: 85
37112122 CTAGTTGTCA
37112132 AGTTCAAATATCAAAGTAATTCAAAAAAGAAAAAAAAATTATATATATATATATATCAAAGTGGA
1 AGTTCAAATATCAAAGTAATTCAAAAAAGAAAAAAAAATTATATATATATATATATCAAAGTGGA
37112197 CCTAGTTTCCAAGTCCAATT
66 CCTAGTTTCCAAGTCCAATT
37112217 AGTTCAAATA-CAAAGTAATTCAAAAAAGAAAAAAAAATTATATATATATATATATCAAAGTGGA
1 AGTTCAAATATCAAAGTAATTCAAAAAAGAAAAAAAAATTATATATATATATATATCAAAGTGGA
37112281 CCTAGTTTCCAAGTCCAATT
66 CCTAGTTTCCAAGTCCAATT
37112301 A
1 A
37112302 CCAAAAATTA
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 75 0.88
85 10 0.12
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (85 bp):
AGTTCAAATATCAAAGTAATTCAAAAAAGAAAAAAAAATTATATATATATATATATCAAAGTGGA
CCTAGTTTCCAAGTCCAATT
Found at i:37114472 original size:143 final size:143
Alignment explanation
Indices: 37114214--37114502 Score: 479
Period size: 143 Copynumber: 2.0 Consensus size: 143
37114204 TAAATACGTA
37114214 GTTTGTGCAGTAAATGTTTTTATTTATCATATGTTTTGACTAATATATAGCTTGTACAGGTGGAA
1 GTTTGTGCAGTAAATGTTTTTATTTATCATATGTTTTGACTAATATATAGCTTGTACAGGTGGAA
* *
37114279 CCATTGGCTGAGTTACGTAGGAGTACCTGACGAGTTAGAAAACATTAGGCTACTGTTAGATCAAT
66 CCATGGGCCGAGTTACGTAGGAGTACCTGACGAGTTAGAAAACATTAGGCTACTGTTAGATCAAT
*
37114344 GCCCGAAACCAAG
131 ACCCGAAACCAAG
*
37114357 GTTTGTGCAGTAAATGTTTTTATTTATCATATGTTTTGACTAATATATAGCTTGTATAGGTGGAA
1 GTTTGTGCAGTAAATGTTTTTATTTATCATATGTTTTGACTAATATATAGCTTGTACAGGTGGAA
* * * ** *
37114422 CCATGGGCCGAGTTACGTGGGAGTACCTGACGATTTGGAAAATGTTAGGCTGCTGTTAGATCAAT
66 CCATGGGCCGAGTTACGTAGGAGTACCTGACGAGTTAGAAAACATTAGGCTACTGTTAGATCAAT
*
37114487 ACTCGAAACCAAG
131 ACCCGAAACCAAG
37114500 GTT
1 GTT
37114503 AATTACCTAT
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
143 135 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (143 bp):
GTTTGTGCAGTAAATGTTTTTATTTATCATATGTTTTGACTAATATATAGCTTGTACAGGTGGAA
CCATGGGCCGAGTTACGTAGGAGTACCTGACGAGTTAGAAAACATTAGGCTACTGTTAGATCAAT
ACCCGAAACCAAG
Found at i:37119715 original size:7 final size:8
Alignment explanation
Indices: 37119685--37119732 Score: 64
Period size: 8 Copynumber: 6.1 Consensus size: 8
37119675 CTTTCAAAAT
37119685 ACCCTAAA
1 ACCCTAAA
37119693 ACCCTAAA
1 ACCCTAAA
*
37119701 ATCCTAAA
1 ACCCTAAA
37119709 A-CCTAAAA
1 ACCCT-AAA
37119717 ACCCTAAA
1 ACCCTAAA
37119725 A-CCTAAA
1 ACCCTAAA
37119732 A
1 A
37119733 AAAATAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
7 10 0.27
8 24 0.65
9 3 0.08
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (8 bp):
ACCCTAAA
Found at i:37119733 original size:16 final size:16
Alignment explanation
Indices: 37119680--37119733 Score: 74
Period size: 16 Copynumber: 3.3 Consensus size: 16
37119670 AAATACTTTC
37119680 AAAATACCCTAAAACCCT
1 AAAA-ACCCTAAAA-CCT
*
37119698 -AAAATCCTAAAACCT
1 AAAAACCCTAAAACCT
37119713 AAAAACCCTAAAACCT
1 AAAAACCCTAAAACCT
37119729 AAAAA
1 AAAAA
37119734 AAATAAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 3 0.09
16 27 0.82
17 3 0.09
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAACCCTAAAACCT
Found at i:37119741 original size:24 final size:25
Alignment explanation
Indices: 37119689--37119741 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
37119679 CAAAATACCC
***
37119689 TAAAACCCTAAAATCCTAAAACCTA
1 TAAAACCCTAAAATCCTAAAAAAAA
37119714 -AAAACCCTAAAA-CCTAAAAAAAA
1 TAAAACCCTAAAATCCTAAAAAAAA
37119737 TAAAA
1 TAAAA
37119742 AGTCCTAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (25 bp):
TAAAACCCTAAAATCCTAAAAAAAA
Found at i:37121018 original size:10 final size:11
Alignment explanation
Indices: 37120993--37121018 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37120983 TTTCTTTATG
37120993 AAAAATAAATT
1 AAAAATAAATT
37121004 AAAAATAAATT
1 AAAAATAAATT
37121015 AAAA
1 AAAA
37121019 GGCGGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATAAATT
Found at i:37130143 original size:22 final size:22
Alignment explanation
Indices: 37130115--37130165 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
37130105 NNNNNNNNNN
*
37130115 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAACGAAA
37130137 TTGAGAGAATTTTGGAACGAAA
1 TTGAGAGAATTTTGGAACGAAA
37130159 TTGAGAG
1 TTGAGAG
37130166 GATTAGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.31, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAACGAAA
Found at i:37130632 original size:26 final size:26
Alignment explanation
Indices: 37130598--37130658 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
37130588 CCTTAAATAT
* *
37130598 AATTAAAATAT-ATTAAATTATTTAAC
1 AATTTAAATATGATAAAATT-TTTAAC
*
37130624 AATTTAAATATGATAAAATTTTTAAT
1 AATTTAAATATGATAAAATTTTTAAC
37130650 AATGTTAAA
1 AAT-TTAAA
37130659 AAAATCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (26 bp):
AATTTAAATATGATAAAATTTTTAAC
Found at i:37133260 original size:23 final size:22
Alignment explanation
Indices: 37133189--37133274 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 22
37133179 CCTGATCAGT
37133189 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
** *
37133210 A-ACGACACACGAGGTGCCT-A
1 ATACGACACATAAAGTGCCTGA
*
37133230 ATACGACACATAAAGTGTCTGA
1 ATACGACACATAAAGTGCCTGA
*
37133252 GATACGACACATAAAGTGTCTGA
1 -ATACGACACATAAAGTGCCTGA
37133275 TCGGCAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.18
21 22 0.40
22 1 0.02
23 22 0.40
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:37134220 original size:18 final size:17
Alignment explanation
Indices: 37134188--37134241 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
37134178 TCTTCCCCTG
*
37134188 TTTTCGTCTCTTTC-TC
1 TTTTCTTCTCTTTCTTC
37134204 TGTTTCTTCTCTGTTCTTC
1 T-TTTCTTCTCT-TTCTTC
37134223 TTTTCTT-TCTTT-TTC
1 TTTTCTTCTCTTTCTTC
37134238 TTTT
1 TTTT
37134242 TTTTTTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
15 7 0.21
16 3 0.09
17 12 0.35
18 9 0.26
19 3 0.09
ACGTcount: A:0.00, C:0.24, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTCTTCTCTTTCTTC
Found at i:37134230 original size:30 final size:29
Alignment explanation
Indices: 37134159--37134239 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 29
37134149 ATTTTCCCTC
*
37134159 TTTCTTTTCTTTCCCTTTTTCTTCCCCTGT
1 TTTCTTTTCTTTCTC-TTTTCTTCCCCTGT
* * *
37134189 TTTCGTCTCTTTCTCTGTTTCTT-CTCTGT
1 TTTCTTTTCTTTCTCT-TTTCTTCCCCTGT
37134218 TCTTCTTTTCTTTCT-TTTTCTT
1 T-TTCTTTTCTTTCTCTTTTCTT
37134240 TTTTTTTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.14
29 8 0.19
30 29 0.67
ACGTcount: A:0.00, C:0.28, G:0.05, T:0.67
Consensus pattern (29 bp):
TTTCTTTTCTTTCTCTTTTCTTCCCCTGT
Found at i:37134494 original size:30 final size:27
Alignment explanation
Indices: 37134454--37134518 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 27
37134444 TTTCCTATAA
*
37134454 TATATTATTTTAATCTTAATTAATATAATT
1 TATAATATTTTAAT-TTAA-TAATAT-ATT
*
37134484 TATAATATTTTAATTTAATAATATTTT
1 TATAATATTTTAATTTAATAATATATT
37134511 TATAATAT
1 TATAATAT
37134519 AAATCAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.30
28 6 0.18
29 4 0.12
30 13 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TATAATATTTTAATTTAATAATATATT
Found at i:37134501 original size:25 final size:26
Alignment explanation
Indices: 37134469--37134518 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
37134459 TATTTTAATC
37134469 TTAATTAAT-ATA-ATTTATAATATT
1 TTAATTAATAATATATTTATAATATT
*
37134493 TTAATTTAATAATATTTTTATAATAT
1 TTAA-TTAATAATATATTTATAATAT
37134519 AAATCAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 5 0.23
26 3 0.14
27 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTAATTAATAATATATTTATAATATT
Found at i:37134504 original size:16 final size:16
Alignment explanation
Indices: 37134459--37134510 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
37134449 TATAATATAT
37134459 TATTTTAATCTTAATTAA
1 TATTTTAAT-TTAA-TAA
37134477 TA---TAATTT-ATAA
1 TATTTTAATTTAATAA
37134489 TATTTTAATTTAATAA
1 TATTTTAATTTAATAA
37134505 TATTTT
1 TATTTT
37134511 TATAATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 2 0.07
15 10 0.33
16 10 0.33
18 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTTAATTTAATAA
Found at i:37136798 original size:21 final size:20
Alignment explanation
Indices: 37136765--37136803 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
37136755 ATTTTCACGA
37136765 TTTTAAATATAAAATATTTG
1 TTTTAAATATAAAATATTTG
*
37136785 TTTTATATCATAAAATATT
1 TTTTAAAT-ATAAAATATT
37136804 AAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTTAAATATAAAATATTTG
Found at i:37139671 original size:14 final size:15
Alignment explanation
Indices: 37139649--37139687 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
37139639 CCGTATATAT
*
37139649 TAATCTTTTAA-AAA
1 TAATTTTTTAATAAA
37139663 TAATTTTTTAATAAA
1 TAATTTTTTAATAAA
*
37139678 TTATTTTTTA
1 TAATTTTTTA
37139688 CAATTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTTTTTAATAAA
Found at i:37140955 original size:21 final size:21
Alignment explanation
Indices: 37140921--37140968 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
37140911 AAAAAATAGA
37140921 AAAAAATAAGAAAAATAATGT
1 AAAAAATAAGAAAAATAATGT
*
37140942 AAAAAA-AAGTAAAAGTAA--T
1 AAAAAATAAG-AAAAATAATGT
37140961 AAAAAATA
1 AAAAAATA
37140969 TTTTTTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (21 bp):
AAAAAATAAGAAAAATAATGT
Found at i:37149172 original size:21 final size:21
Alignment explanation
Indices: 37149146--37149185 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37149136 TATAGATACA
37149146 ATTTTTAATTTTTGTTTAGTT
1 ATTTTTAATTTTTGTTTAGTT
* *
37149167 ATTTTTATTTTTTTTTTAG
1 ATTTTTAATTTTTGTTTAG
37149186 GTCATGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (21 bp):
ATTTTTAATTTTTGTTTAGTT
Found at i:37156623 original size:60 final size:60
Alignment explanation
Indices: 37156530--37156650 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
37156520 AGCTTGTGTG
37156530 AGCAGACCCATTTCACAGCTCGTGTGAGCAATGATGTAAAGGAAAAAGAAATGAAAGGTT
1 AGCAGACCCATTTCACAGCTCGTGTGAGCAATGATGTAAAGGAAAAAGAAATGAAAGGTT
37156590 AGCAGACCCATTTCACAGCTCGTGTGAGCAATGATGTAAAGGAAAAAGAAATGAAAGGTT
1 AGCAGACCCATTTCACAGCTCGTGTGAGCAATGATGTAAAGGAAAAAGAAATGAAAGGTT
37156650 A
1 A
37156651 TATGTTTAGC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (60 bp):
AGCAGACCCATTTCACAGCTCGTGTGAGCAATGATGTAAAGGAAAAAGAAATGAAAGGTT
Found at i:37164136 original size:18 final size:18
Alignment explanation
Indices: 37164107--37164150 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
37164097 TGAGTCATGG
* *
37164107 AAGGAAGATGAAA-ATGA
1 AAGGAGGATGAAACATCA
37164124 AAGCGAGGATGAAACATCA
1 AAG-GAGGATGAAACATCA
37164143 AAGGAGGA
1 AAGGAGGA
37164151 AGACGAGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 14 0.61
19 6 0.26
ACGTcount: A:0.52, C:0.07, G:0.32, T:0.09
Consensus pattern (18 bp):
AAGGAGGATGAAACATCA
Found at i:37164246 original size:25 final size:25
Alignment explanation
Indices: 37164200--37164247 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
37164190 ATTTCTTATC
* *
37164200 TTTAGTTTTTATTTCTTTTTAGATG
1 TTTAGTTTCTATTTCTTGTTAGATG
37164225 TTTA-TTTCTATTTCTTAGTTAGA
1 TTTAGTTTCTATTTCTT-GTTAGA
37164248 ATTTTGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (25 bp):
TTTAGTTTCTATTTCTTGTTAGATG
Found at i:37172440 original size:46 final size:45
Alignment explanation
Indices: 37172330--37172459 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 45
37172320 GTGTGCCATG
* * * * *
37172330 GTGTCTTTTAATCATGGTCTTATTTATTCTCTTCTTGATGGCATA
1 GTGTCTTTTAACCATGGTCTTATTCATTTTCTTCGTGATGGAATA
* *
37172375 GTGT-TTTTAACCATGGTCTTATTCATTTTCTATCGTGTTGTAATA
1 GTGTCTTTTAACCATGGTCTTATTCATTTTCT-TCGTGATGGAATA
* * **
37172420 GTGTCTTTCAACCATGGTCTTTTTCATTTGATTCGTGATG
1 GTGTCTTTTAACCATGGTCTTATTCATTTTCTTCGTGATG
37172460 CCATAACATC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
44 24 0.34
45 24 0.34
46 23 0.32
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.50
Consensus pattern (45 bp):
GTGTCTTTTAACCATGGTCTTATTCATTTTCTTCGTGATGGAATA
Found at i:37172482 original size:45 final size:45
Alignment explanation
Indices: 37172452--37172616 Score: 251
Period size: 45 Copynumber: 3.7 Consensus size: 45
37172442 TTCATTTGAT
* *
37172452 TCGTGATGCCATAACATCTTTCAGTTATGGTTTTACTCGATAGAA
1 TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
* *
37172497 TCGTGATGCCATAACGTCTTTTAGTCATGGTCTTACTCGATAGAA
1 TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
* *
37172542 TCGTAATGCCATAACATCTTTCAGTCATGATCTTACTCGATAGAA
1 TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
* *
37172587 TCGTGATGCCATAACGTCTTTCGGT-ATGGT
1 TCGTGATGCCATAACATCTTTCAGTCATGGT
37172617 GCCATAGTGT
Statistics
Matches: 108, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 4 0.04
45 104 0.96
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (45 bp):
TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAA
Found at i:37172516 original size:90 final size:90
Alignment explanation
Indices: 37172422--37172608 Score: 259
Period size: 90 Copynumber: 2.1 Consensus size: 90
37172412 TTGTAATAGT
** * * * * * *
37172422 GTCTTTCAACCATGGTCTTTTTC-ATTTGATTCGTGATGCCATAACATCTTTCAGTTATGGTTTT
1 GTCTTTCAACCATGGTCTTACTCGA-TAGAATCGTAATGCCATAACATCTTTCAGTCATGATCTT
37172486 ACTCGATAGAATCGTGATGCCATAAC
65 ACTCGATAGAATCGTGATGCCATAAC
* **
37172512 GTCTTTTAGTCATGGTCTTACTCGATAGAATCGTAATGCCATAACATCTTTCAGTCATGATCTTA
1 GTCTTTCAACCATGGTCTTACTCGATAGAATCGTAATGCCATAACATCTTTCAGTCATGATCTTA
37172577 CTCGATAGAATCGTGATGCCATAAC
66 CTCGATAGAATCGTGATGCCATAAC
37172602 GTCTTTC
1 GTCTTTC
37172609 GGTATGGTGC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
90 83 0.99
91 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (90 bp):
GTCTTTCAACCATGGTCTTACTCGATAGAATCGTAATGCCATAACATCTTTCAGTCATGATCTTA
CTCGATAGAATCGTGATGCCATAAC
Found at i:37174125 original size:16 final size:16
Alignment explanation
Indices: 37174104--37174134 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37174094 CACGGCAGAA
*
37174104 ACCTATAGAGGTATGC
1 ACCTATAGAAGTATGC
37174120 ACCTATAGAAGTATG
1 ACCTATAGAAGTATG
37174135 TATCATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (16 bp):
ACCTATAGAAGTATGC
Found at i:37191852 original size:16 final size:18
Alignment explanation
Indices: 37191831--37191863 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
37191821 TGCAAAGCAA
37191831 TTTTCTT-T-TAAAAAAG
1 TTTTCTTATATAAAAAAG
37191847 TTTTCTTATATAAAAAA
1 TTTTCTTATATAAAAAA
37191864 TGGGTAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (18 bp):
TTTTCTTATATAAAAAAG
Found at i:37192331 original size:22 final size:22
Alignment explanation
Indices: 37192306--37192361 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
37192296 CAAGGGAGCC
37192306 TTGTCTCGAGACA-ATCAAAAAA
1 TTGTCTCGAGACATAT-AAAAAA
* **
37192328 TTGTCTCAAGACATATAGCAAA
1 TTGTCTCGAGACATATAAAAAA
37192350 TTGTCTCGAGAC
1 TTGTCTCGAGAC
37192362 CAAGTCATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (22 bp):
TTGTCTCGAGACATATAAAAAA
Found at i:37197680 original size:15 final size:15
Alignment explanation
Indices: 37197660--37197705 Score: 92
Period size: 15 Copynumber: 3.1 Consensus size: 15
37197650 ATGGGAGATT
37197660 AACAAGTGGATGGGG
1 AACAAGTGGATGGGG
37197675 AACAAGTGGATGGGG
1 AACAAGTGGATGGGG
37197690 AACAAGTGGATGGGG
1 AACAAGTGGATGGGG
37197705 A
1 A
37197706 CATGGTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.35, C:0.07, G:0.46, T:0.13
Consensus pattern (15 bp):
AACAAGTGGATGGGG
Done.