Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 67 of 210
Found at i:23719182 original size:51 final size:50
Alignment explanation
Indices: 23719005--23719240 Score: 276
Period size: 50 Copynumber: 4.6 Consensus size: 50
23718995 TGGTACTACT
* * * * * *
23719005 AATGCCATATCCCAGATATGGTCTTAAATGGGAGCTCTCATATAGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCC
* *
23719055 CATGCCATGTCCCAGACATGGTCTTAC-GGGCGACCTCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTCGGTGCC
*
23719105 AATGCCATGTCCCACACATGGTCTTACATGGGACCTCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCC
* * * *
23719155 AAACGCCATGTCCCAGAAATGGTCTTACATGGGACCTCTCATAAAATCAATGATGCC
1 -AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC---GGTGCC
23719212 AATGCCATGTCCCAGACATGGTCTTACAT
1 AATGCCATGTCCCAGACATGGTCTTACAT
23719241 AGAATCTCTT
Statistics
Matches: 159, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.01
50 83 0.52
51 40 0.25
54 2 0.01
56 27 0.17
57 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCC
Found at i:23725869 original size:50 final size:50
Alignment explanation
Indices: 23725741--23726037 Score: 227
Period size: 50 Copynumber: 5.8 Consensus size: 50
23725731 GAATATAACA
* * * ** * * * *
23725741 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * * * * *
23725790 TGCCAATGTCATATCTCAGATATGCTCTTACATAGGAACTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * ** * * *
23725840 TGCCAATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCGTCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
23725890 TGCCAACGCCATGCCCCACACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
23725940 TGTCAACGCCATGTCCCAGACATGGTCTTACATAGTACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
* *
23725996 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23726038 TTACCCAAAT
Statistics
Matches: 192, Mismatches: 49, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
49 34 0.18
50 119 0.62
53 1 0.01
56 38 0.20
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:23733731 original size:18 final size:19
Alignment explanation
Indices: 23733703--23733739 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23733693 GCATTCACAT
23733703 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
23733722 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
23733740 TTCTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:23743152 original size:9 final size:9
Alignment explanation
Indices: 23743138--23743172 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
23743128 TTAATTGGAA
23743138 AATTAATTT
1 AATTAATTT
*
23743147 AGTTAATTT
1 AATTAATTT
*
23743156 AAATAATTT
1 AATTAATTT
23743165 AATTAATT
1 AATTAATT
23743173 AAATAGATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:23743164 original size:18 final size:17
Alignment explanation
Indices: 23743141--23743177 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
23743131 ATTGGAAAAT
*
23743141 TAATTTAGTTAATTTAAA
1 TAATTTAATTAA-TTAAA
23743159 TAATTTAATTAATTAAA
1 TAATTTAATTAATTAAA
23743176 TA
1 TA
23743178 GATAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TAATTTAATTAATTAAA
Found at i:23748502 original size:22 final size:21
Alignment explanation
Indices: 23748477--23748543 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 21
23748467 TACAAATTAA
*
23748477 ATCTTTAAGATTACAAAATCAT
1 ATCTTTAAGATTAC-ATATCAT
* *
23748499 ATCTTCTAAGATTGCTTATCAT
1 ATCTT-TAAGATTACATATCAT
23748521 ATC--TAAGATTACATATCAT
1 ATCTTTAAGATTACATATCAT
23748540 ATCT
1 ATCT
23748544 AAAATTGCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 17 0.45
22 13 0.34
23 8 0.21
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.40
Consensus pattern (21 bp):
ATCTTTAAGATTACATATCAT
Found at i:23748527 original size:19 final size:19
Alignment explanation
Indices: 23748503--23748553 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
23748493 AATCATATCT
*
23748503 TCTAAGATTGCTTATCATA
1 TCTAAGATTGCATATCATA
*
23748522 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
23748541 TCTAAAATTGCAT
1 TCTAAGATTGCAT
23748554 CTCCTTGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23749152 original size:45 final size:45
Alignment explanation
Indices: 23749057--23749615 Score: 241
Period size: 44 Copynumber: 12.6 Consensus size: 45
23749047 TTCTAATCCA
* * ** * * *
23749057 CTCCACTGTAACTTTAGGGAGATGGGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * *
23749101 CCCCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * ** *
23749146 CTCCACTGCAACTTCAGAGAGATAATACCCGA--T-GTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * * * * *
23749187 CT-CTCTGCAACTTCAGAGAGATAAGATCTAAGATTTCTGGTTCTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTC---TT-GAGTCTG
* * * * * *
23749237 CTCCATTGCAACTTCAAGGAGATAGGA-TT-ATTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TCTTGAGTCTG
* *** *
23749281 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* *
23749326 C-CTCACTGCAACTTC-GGGAGGATAAGACTTGCTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTGAGTCTG
* * *
23749370 CTTCACTGCAACTTCAGGGAGATAAGACTAGA-TGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
* * ** * *
23749411 CT-CTCTGCAACTTCAGAGAGATAAGA-TCCAATGTT-TT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TGAT-TTCTTGAGTCTG
*** * ** * **
23749454 CTCCACTGCAACTTCAAAAAGATAGGA-TT-ATCAGCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGAT-TTCTTGAGTCTG
* * ** * *
23749498 CTCCACTACAACTTTAGGGAGATAAGGTTTGCA-ATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-ATTTCTTGAGTCTG
* * * *
23749543 C-CTTACTGCAACTTCA-GGAGGATAAAACTTGCTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTGAGTCTG
*
23749587 CTCCCCTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
23749616 AGATGGGATC
Statistics
Matches: 389, Mismatches: 89, Indels: 74
0.70 0.16 0.13
Matches are distributed among these distances:
39 1 0.00
40 45 0.12
41 13 0.03
42 10 0.03
43 10 0.03
44 163 0.42
45 115 0.30
47 4 0.01
48 2 0.01
49 2 0.01
50 5 0.01
51 19 0.05
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTGAGTCTG
Found at i:23749537 original size:217 final size:217
Alignment explanation
Indices: 23749095--23749701 Score: 847
Period size: 217 Copynumber: 2.8 Consensus size: 217
23749085 TTGTTTATTT
* * * *
23749095 AGTCTGCCCCACTGCAATTTCAGGG-GGATAAGACTTGATTTCTTGAGTCTGCTCCACTGCAACT
1 AGTCTGCCTCACTGCAACTTC-GGGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTGCAACT
* * ** * *
23749159 TCAGAGAGATAATACCCGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTC
64 TCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATC-CA-A----
* * * * *
23749224 TGGTTCTAATCCGCTCCATTGCAACTTCAAGGAGATAGGATTATTAGCTTTAATCTGCTCCACTG
123 T-GTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGCTTTAACCTGCTCCACTA
*
23749289 CAACTTCAGGGAGATAAGATTTGCCATCTTC
187 CAACTTCAGGGAGATAAGATTTGCAATCTTC
*
23749320 AGTCTGCCTCACTGCAACTTCGGGAGGATAAGACTTGCTTACTTAGTCTGCTTCACTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCGGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTC
23749385 AGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAATGTTTTAA
66 AGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAATGTTTTAA
** *
23749450 TCCGCTCCACTGCAACTTCAAAAAGATAGGATTATCAGCTTTAACCTGCTCCACTACAACTTTAG
131 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGCTTTAACCTGCTCCACTACAACTTCAG
*
23749515 GGAGATAAGGTTTGCAATCTTC
196 GGAGATAAGATTTGCAATCTTC
* * * *
23749537 AGTCTGCCTTACTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTGCTCCCCTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCGGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTC
* ** *
23749602 AGGGAGATAAGACTAGATGGGATCTGCTCTCTATAACTTCAGAAAGATAAGATCCAATGTTTTAA
66 AGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAATGTTTTAA
* *
23749667 TCCGCTCCACTGCGACTTCAGGGAGATAGGATTAT
131 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTAT
23749702 TGGCCATGGA
Statistics
Matches: 347, Mismatches: 34, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
217 236 0.68
218 1 0.00
222 1 0.00
223 1 0.00
224 72 0.21
225 36 0.10
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
AGTCTGCCTCACTGCAACTTCGGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTC
AGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAATGTTTTAA
TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGCTTTAACCTGCTCCACTACAACTTCAG
GGAGATAAGATTTGCAATCTTC
Found at i:23765062 original size:2 final size:2
Alignment explanation
Indices: 23765057--23765085 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23765047 ATCATCCATA
23765057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23765086 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23775573 original size:27 final size:27
Alignment explanation
Indices: 23775543--23775595 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
23775533 GGGGGTGGTG
* *
23775543 CCTATCTGGTAGGCGCCATTGGTGACC
1 CCTATCTGGTAGGCACCACTGGTGACC
23775570 CCTATCTGGTAGGCACCACTGGTGAC
1 CCTATCTGGTAGGCACCACTGGTGAC
23775596 TAGAGTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (27 bp):
CCTATCTGGTAGGCACCACTGGTGACC
Found at i:23775844 original size:21 final size:20
Alignment explanation
Indices: 23775806--23775845 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23775796 AATTTTAAAA
*
23775806 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
23775826 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
23775846 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:23779372 original size:44 final size:42
Alignment explanation
Indices: 23779322--23779409 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 42
23779312 AATTATAATT
*
23779322 TTAAATTCTAATTATTTTTAAATGTGTAATTACCACAACTTCTA
1 TTAAATTCTAATTATTTTTAAA--TATAATTACCACAACTTCTA
* * *
23779366 TTAAATTTTAATTATTTTTAAATATATTTATCACAACTTCTA
1 TTAAATTCTAATTATTTTTAAATATAATTACCACAACTTCTA
23779408 TT
1 TT
23779410 TTATTTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 19 0.47
44 21 0.52
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.50
Consensus pattern (42 bp):
TTAAATTCTAATTATTTTTAAATATAATTACCACAACTTCTA
Found at i:23797798 original size:13 final size:13
Alignment explanation
Indices: 23797780--23797808 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23797770 AGAGAGAGGT
23797780 AAATTTCATGGAG
1 AAATTTCATGGAG
23797793 AAATTTCATGGAG
1 AAATTTCATGGAG
23797806 AAA
1 AAA
23797809 GGTAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (13 bp):
AAATTTCATGGAG
Found at i:23798159 original size:20 final size:18
Alignment explanation
Indices: 23798131--23798184 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
23798121 AAAATGATAA
*
23798131 AATCTAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT--TTTC
*
23798151 AATTAAGTTAAACATTTTC
1 AATCAAGTTAAA-ATTTTC
*
23798170 AATCATGTTAAAATT
1 AATCAAGTTAAAATT
23798185 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.10
19 14 0.48
20 10 0.34
21 2 0.07
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (18 bp):
AATCAAGTTAAAATTTTC
Found at i:23803401 original size:21 final size:21
Alignment explanation
Indices: 23803377--23803430 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
23803367 ATGTTGAAAG
23803377 TAAATTAATAAAAAATAAGA-A
1 TAAATTAATAAAAAATAA-ATA
*
23803398 TAAATT-ATAAATAATAAATTA
1 TAAATTAATAAAAAATAAA-TA
23803419 TAAA-TAATAAAA
1 TAAATTAATAAAA
23803431 CAAGTAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
20 11 0.39
21 16 0.57
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAATTAATAAAAAATAAATA
Found at i:23803407 original size:7 final size:7
Alignment explanation
Indices: 23803377--23803429 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
23803367 ATGTTGAAAG
23803377 TAAATTAA
1 TAAA-TAA
*
23803385 TAAAAAA
1 TAAATAA
*
23803392 T-AAGAA
1 TAAATAA
*
23803398 TAAATTA
1 TAAATAA
23803405 TAAATAA
1 TAAATAA
*
23803412 TAAATTA
1 TAAATAA
23803419 TAAATAA
1 TAAATAA
23803426 TAAA
1 TAAA
23803430 ACAAGTAAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
6 5 0.14
7 28 0.76
8 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (7 bp):
TAAATAA
Found at i:23803415 original size:14 final size:14
Alignment explanation
Indices: 23803396--23803429 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
23803386 AAAAAATAAG
23803396 AATAAATTATAAAT
1 AATAAATTATAAAT
23803410 AATAAATTATAAAT
1 AATAAATTATAAAT
23803424 AATAAA
1 AATAAA
23803430 ACAAGTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAATTATAAAT
Found at i:23805066 original size:22 final size:22
Alignment explanation
Indices: 23805036--23805078 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23805026 CCAGTATATG
* *
23805036 AGAGTCTTTTATGGGATGTATA
1 AGAGCCTTTTATGGGACGTATA
23805058 AGAGCCTTTTATGGGACGTAT
1 AGAGCCTTTTATGGGACGTAT
23805079 GAAAGCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (22 bp):
AGAGCCTTTTATGGGACGTATA
Found at i:23805085 original size:22 final size:22
Alignment explanation
Indices: 23805032--23805090 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
23805022 CGCACCAGTA
* * *
23805032 TATGAGAGTCTTTTATGGGATG
1 TATGAAAGCCTTTTATGGGACG
23805054 TAT-AAGAGCCTTTTATGGGACG
1 TATGAA-AGCCTTTTATGGGACG
*
23805076 TATGAAAGCCATTTA
1 TATGAAAGCCTTTTA
23805091 AGGGTAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (22 bp):
TATGAAAGCCTTTTATGGGACG
Found at i:23806252 original size:70 final size:66
Alignment explanation
Indices: 23806133--23806266 Score: 178
Period size: 70 Copynumber: 2.0 Consensus size: 66
23806123 ACAATATAAC
* * *
23806133 GGTTTTGCCTTTTAACTTAATAGGTAAACATTTATCAAAATGACATAGTTTTGCATTTTTACTTA
1 GGTTTTGACTTTTAACTTAAAAGGTAAACATTTATCAAAATGACATAGTTCTGC-TTTTTACTTA
23806198 AT
65 AT
** *
23806200 GGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATGATGTAGTTCTGCTTTTTTCT
1 GGTTTTGACTTTTAAC-TT--AAAAGGTAAACATTTATCAAAATGACATAGTTCTGCTTTTTACT
23806265 TA
63 TA
23806267 TTTGGATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 15 0.26
68 2 0.03
69 9 0.16
70 32 0.55
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (66 bp):
GGTTTTGACTTTTAACTTAAAAGGTAAACATTTATCAAAATGACATAGTTCTGCTTTTTACTTAA
T
Found at i:23807460 original size:72 final size:72
Alignment explanation
Indices: 23807343--23807544 Score: 264
Period size: 72 Copynumber: 2.8 Consensus size: 72
23807333 GGATTTCATG
* * * *
23807343 ATCGATGACTTGAGATCTAACATGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATC-GAAT
1 ATCGATGGCTTGAGATCCAACACGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATCAAAAT
23807407 CAT-TGATT
66 -ATCT-ATT
* *
23807415 ATCGATGGCTTGAGATCCAACACGTGTTGCGGATTCTCTAAAGCTTGTGTGAGCAACATCAAAAT
1 ATCGATGGCTTGAGATCCAACACGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATCAAAAT
*
23807480 ATCTTTT
66 ATCTATT
* * * * *
23807487 ACCGATGGCTTGAGATTCAGCACGTGTTGTGAATTCTCTAAAGTTTGTGTGAGCAGCA
1 ATCGATGGCTTGAGATCCAACACGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCA
23807545 CTAGGTAAAG
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
72 110 0.96
73 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (72 bp):
ATCGATGGCTTGAGATCCAACACGTGTTGTGGATTCTCTAAAGCTTGTGTGAGCAGCATCAAAAT
ATCTATT
Found at i:23808553 original size:19 final size:21
Alignment explanation
Indices: 23808509--23808558 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
23808499 ACGGGATAAA
23808509 GTATCGATACTCTATATTAAG
1 GTATCGATACTCTATATTAAG
23808530 GTATCGATACT-T-TA-TAAGG
1 GTATCGATACTCTATATTAA-G
23808549 GTATCGATAC
1 GTATCGATAC
23808559 ATTGGACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.11
19 13 0.46
20 1 0.04
21 11 0.39
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (21 bp):
GTATCGATACTCTATATTAAG
Found at i:23817547 original size:24 final size:24
Alignment explanation
Indices: 23817515--23817588 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
23817505 TTAACGATAG
23817515 TTCTTTCTTCTTTATTTTTTTATT
1 TTCTTTCTTCTTTATTTTTTTATT
** * *
23817539 TTCTTTCTTCTTTATCATTTCATC
1 TTCTTTCTTCTTTATTTTTTTATT
23817563 TTC-TTCTT-TTTCATTTTATTTATT
1 TTCTTTCTTCTTT-ATTTT-TTTATT
23817587 TT
1 TT
23817589 GCTAATCGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 3 0.08
23 8 0.20
24 29 0.73
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (24 bp):
TTCTTTCTTCTTTATTTTTTTATT
Found at i:23818395 original size:62 final size:61
Alignment explanation
Indices: 23818232--23818443 Score: 212
Period size: 62 Copynumber: 3.4 Consensus size: 61
23818222 GTGTAGGGTT
* * * *
23818232 CACACGGCCAAGGACATGGGCATGTGTCTAGGCCGTGTAACTCACTATTTGTGGTATAAGAC
1 CACACAGCCAAGGACACGGGCATGTGTCT-GGGCGTGTAACTCACTATTTATGGTATAAGAC
* * *
23818294 CACA-AGCCCAATGACACGGGCATGTGTCTGAGCTATGTAACTCACTATTTATGGTATAAGAC
1 CACACAG-CCAAGGACACGGGCATGTGTCTGGGC-GTGTAACTCACTATTTATGGTATAAGAC
* * * * * *
23818356 CACACAGCCAAGGACACAGGCATGTGTTTGGGTCGTGTAACTCGA-TGTTTGTGGTGTAAAAC
1 CACACAGCCAAGGACACGGGCATGTGTCTGGG-CGTGTAACTC-ACTATTTATGGTATAAGAC
** * *
23818418 CACATGGCCAGGGACATGGGCATGTG
1 CACACAGCCAAGGACACGGGCATGTG
23818444 CCCAGGCCGT
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
61 3 0.02
62 117 0.94
63 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (61 bp):
CACACAGCCAAGGACACGGGCATGTGTCTGGGCGTGTAACTCACTATTTATGGTATAAGAC
Found at i:23824635 original size:34 final size:34
Alignment explanation
Indices: 23824591--23824661 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
23824581 TACGCTTAGG
* *
23824591 AAAACTCAGTGATATTTCTATAATCCAAACATTT
1 AAAACACAGTGATATTTCAATAATCCAAACATTT
*
23824625 AAAACACAGTGATATTTCAATAATCCGAACATTT
1 AAAACACAGTGATATTTCAATAATCCAAACATTT
23824659 AAA
1 AAA
23824662 GACAAGAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (34 bp):
AAAACACAGTGATATTTCAATAATCCAAACATTT
Found at i:23826167 original size:16 final size:16
Alignment explanation
Indices: 23826146--23826176 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23826136 GCATGGCTTT
23826146 CTATTTCTTTTATTAC
1 CTATTTCTTTTATTAC
*
23826162 CTATTTGTTTTATTA
1 CTATTTCTTTTATTA
23826177 TACTTTATTT
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:0.19, C:0.13, G:0.03, T:0.65
Consensus pattern (16 bp):
CTATTTCTTTTATTAC
Found at i:23828680 original size:14 final size:14
Alignment explanation
Indices: 23828661--23828687 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23828651 GGAACCCTAC
23828661 AATAAAAAAACAAA
1 AATAAAAAAACAAA
23828675 AATAAAAAAACAA
1 AATAAAAAAACAA
23828688 GGTGGGTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (14 bp):
AATAAAAAAACAAA
Found at i:23829336 original size:18 final size:19
Alignment explanation
Indices: 23829294--23829336 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
23829284 GGAGAGGAGG
*
23829294 ATTGACAAGGAAGTGCAAC
1 ATTGAGAAGGAAGTGCAAC
* *
23829313 AGTGAGAAGGAGGTG-AAC
1 ATTGAGAAGGAAGTGCAAC
23829331 ATTGAG
1 ATTGAG
23829337 CAGCCAGTGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.40, C:0.09, G:0.35, T:0.16
Consensus pattern (19 bp):
ATTGAGAAGGAAGTGCAAC
Found at i:23835957 original size:22 final size:23
Alignment explanation
Indices: 23835914--23835959 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
23835904 CAGGTTTTAC
23835914 TGTCTAGCTGCTGCCGATTTTAATT
1 TGTCTAGCTGCTGCC-A-TTTAATT
*
23835939 TGTCTTGCTGCTGCC-TTTAAT
1 TGTCTAGCTGCTGCCATTTAAT
23835960 ATGATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
25 14 0.70
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.46
Consensus pattern (23 bp):
TGTCTAGCTGCTGCCATTTAATT
Found at i:23839037 original size:85 final size:85
Alignment explanation
Indices: 23838879--23839048 Score: 225
Period size: 85 Copynumber: 2.0 Consensus size: 85
23838869 TTAGATAAAA
* ** * *
23838879 ATATTTACAGTTACTACCACTTGTTGTGAGTAAACAACATGGTTGCAGATTAAGCAAACTGCCAC
1 ATATTTACAATTACTACCACTTGTTGTGAGTAAACAACATAATTGCAGATTAAACAAACTACCAC
23838944 TAGGTTTGTGGACGAGCCAC
66 TAGGTTTGTGGACGAGCCAC
* * * * *
23838964 ATATTTACAATTACTGCCACTTGTTGTGAGT-GACAATATAATTGCATATTAAATAAACTACCAC
1 ATATTTACAATTACTACCACTTGTTGTGAGTAAACAACATAATTGCAGATTAAACAAACTACCAC
*
23839028 TAGGTTTTGTGGATGAGCCAC
66 TAGG-TTTGTGGACGAGCCAC
23839049 TACTTGTTTG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 29 0.40
85 44 0.60
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (85 bp):
ATATTTACAATTACTACCACTTGTTGTGAGTAAACAACATAATTGCAGATTAAACAAACTACCAC
TAGGTTTGTGGACGAGCCAC
Found at i:23839614 original size:28 final size:28
Alignment explanation
Indices: 23839556--23839724 Score: 107
Period size: 27 Copynumber: 5.9 Consensus size: 28
23839546 TAAAATTTTA
* * * *
23839556 GGTAAAACTGTAAAATCTAAAAAATA-G
1 GGTAAAATTGTAAATTTTGAAAAATAGG
23839583 GGTAAAATTGTAAATTTTGAAAAATAGG
1 GGTAAAATTGTAAATTTTGAAAAATAGG
* * *
23839611 GGTAAAACTGTAAAGTTTG-AAAATAAGC
1 GGTAAAATTGTAAATTTTGAAAAAT-AGG
* * *
23839639 GCT-AAATTGGAAATTTGGGAAAACATA--
1 GGTAAAATTGTAAATTT-TGAAAA-ATAGG
*
23839666 GGCAAAACTT-TAAATTTTGGAAAAAAAATAGG
1 GGTAAAA-TTGTAAATTTT-G---AAAAATAGG
*
23839698 GGTAAAATTGTAAAATTTTAAAAAATA
1 GGTAAAATTGT-AAATTTTGAAAAATA
23839725 AGAGCTAAAC
Statistics
Matches: 109, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
27 38 0.35
28 33 0.30
29 13 0.12
30 5 0.05
31 6 0.06
32 7 0.06
33 7 0.06
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.27
Consensus pattern (28 bp):
GGTAAAATTGTAAATTTTGAAAAATAGG
Found at i:23839740 original size:29 final size:29
Alignment explanation
Indices: 23839708--23839778 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
23839698 GGTAAAATTG
* * *
23839708 TAAAATTTTAAAAAAT-AAGAGCTAAACTA
1 TAAAATTTGAAAAAATAAAG-GCAAAAATA
*
23839737 TAAAATTTGGAAAAATAAAGGCAAAAATA
1 TAAAATTTGAAAAAATAAAGGCAAAAATA
23839766 TAAAATTTGAAAA
1 TAAAATTTGAAAA
23839779 TTAGTGGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 33 0.92
30 3 0.08
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.25
Consensus pattern (29 bp):
TAAAATTTGAAAAAATAAAGGCAAAAATA
Found at i:23839833 original size:28 final size:27
Alignment explanation
Indices: 23839801--23839892 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
23839791 TTATATATTT
*
23839801 TAAAACATAGGGGAAAACTGTAAAATC
1 TAAAAAATAGGGGAAAACTGTAAAATC
*
23839828 TAAAAAATA-GGGACTAAACTATAAAATC
1 TAAAAAATAGGGGA--AAACTGTAAAATC
* **
23839856 TGGAAAGCT-GGGGCAAAA-TGTAAAATC
1 T-AAAAAATAGGGG-AAAACTGTAAAATC
23839883 TAAAAAATAG
1 TAAAAAATAG
23839893 AGGACACACG
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
26 8 0.16
27 18 0.36
28 16 0.32
29 7 0.14
30 1 0.02
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.20
Consensus pattern (27 bp):
TAAAAAATAGGGGAAAACTGTAAAATC
Found at i:23841772 original size:94 final size:94
Alignment explanation
Indices: 23841607--23841782 Score: 248
Period size: 94 Copynumber: 1.9 Consensus size: 94
23841597 GTTACAAGAA
* * *
23841607 GTGAGCTATGAGAGTATTTTCTAGTCAATATGGGATTAAAATTAACTTTTTAATGAAATAGTAAA
1 GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACTTTTTAATGAAATAGTAAA
*
23841672 AAAAATTGTCACTTATTTATAAGATAAAT
66 AAAAATTGACACTTATTTATAAGATAAAT
* *
23841701 GTGAGATATGAGAGTATTCTCTAGTCAATGTGAGATTAAAATT-ATTCTTTTAATGAAAATAGT-
1 GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACT-TTTTAATG-AAATAGTA
* *
23841764 GAAGAAATTGACACTTATT
64 AAAAAAATTGACACTTATT
23841783 GTAAGCACGA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
93 2 0.03
94 63 0.88
95 7 0.10
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (94 bp):
GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACTTTTTAATGAAATAGTAAA
AAAAATTGACACTTATTTATAAGATAAAT
Found at i:23841933 original size:21 final size:22
Alignment explanation
Indices: 23841892--23841933 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23841882 TAGCCAATGT
23841892 GGGATTAAAATTAACTTTTTAA
1 GGGATTAAAATTAACTTTTTAA
23841914 GGGATTAAAATTAA-TTTTTA
1 GGGATTAAAATTAACTTTTTA
23841934 CTGAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (22 bp):
GGGATTAAAATTAACTTTTTAA
Found at i:23842049 original size:69 final size:68
Alignment explanation
Indices: 23841915--23842084 Score: 220
Period size: 69 Copynumber: 2.5 Consensus size: 68
23841905 ACTTTTTAAG
* * * * * *
23841915 GGATTAAAATTAA-TTTTTACTGAAAATATGAAGAAGAGAGCTATGAGAATATTTTTTAGTCAAT
1 GGATTAAAATTAACTTTTTAATGAAAATATGAAGAAGAGAACTATAAGAATATTCTCTAATCAAT
23841979 GT-
66 GTA
* *
23841981 GAGATTAAAATTAACTTTTTAATGAAAATATTGAAGAAGTGAACTATAAGAGTATTCTCTAATCA
1 G-GATTAAAATTAACTTTTTAATGAAAATA-TGAAGAAGAGAACTATAAGAATATTCTCTAATCA
23842046 ATGTA
64 ATGTA
23842051 GGATTAAAA-TAACTTTTTAATGAAAATAATGAAG
1 GGATTAAAATTAACTTTTTAATGAAAAT-ATGAAG
23842085 GAATTATCAC
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
66 1 0.01
67 12 0.13
68 37 0.41
69 40 0.44
70 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (68 bp):
GGATTAAAATTAACTTTTTAATGAAAATATGAAGAAGAGAACTATAAGAATATTCTCTAATCAAT
GTA
Found at i:23843426 original size:17 final size:17
Alignment explanation
Indices: 23843404--23843437 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23843394 ATTATGGATA
*
23843404 TGATATTTCAAATATTT
1 TGATATGTCAAATATTT
*
23843421 TGATATGTGAAATATTT
1 TGATATGTCAAATATTT
23843438 CAAATATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
TGATATGTCAAATATTT
Found at i:23845393 original size:27 final size:28
Alignment explanation
Indices: 23845348--23845422 Score: 93
Period size: 26 Copynumber: 2.8 Consensus size: 28
23845338 TATATAAACT
*
23845348 TATAAAAATTATTTAAAAATTTTAAAAAA
1 TATAAAAATTATTT-AAAATTTAAAAAAA
*
23845377 T-TAAAAAGTATTTAAAA-TTAAAAAAA
1 TATAAAAATTATTTAAAATTTAAAAAAA
*
23845403 TATATAAATTA-TTAAAATTT
1 TATAAAAATTATTTAAAATTT
23845423 CATAAAGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 15 0.38
27 13 0.32
28 11 0.28
29 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (28 bp):
TATAAAAATTATTTAAAATTTAAAAAAA
Found at i:23845402 original size:47 final size:47
Alignment explanation
Indices: 23845307--23845403 Score: 142
Period size: 47 Copynumber: 2.1 Consensus size: 47
23845297 CCACGCCATC
* * *
23845307 AATTATTTAAAAATTTTAAAAAGTTAAAATATATATAAACTTATAAA
1 AATTATTTAAAAATTTTAAAAAATTAAAATATATATAAAATTAAAAA
*
23845354 AATTATTTAAAAATTTTAAAAAATTAAAA-AGTATTTAAAATTAAAAA
1 AATTATTTAAAAATTTTAAAAAATTAAAATA-TATATAAAATTAAAAA
23845401 AAT
1 AAT
23845404 ATATAAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 1 0.02
47 44 0.98
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (47 bp):
AATTATTTAAAAATTTTAAAAAATTAAAATATATATAAAATTAAAAA
Found at i:23854346 original size:15 final size:15
Alignment explanation
Indices: 23854322--23854351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23854312 TAGGCATTCA
23854322 AAGTGAAGGAATTTT
1 AAGTGAAGGAATTTT
*
23854337 AAGTGGAGGAATTTT
1 AAGTGAAGGAATTTT
23854352 TGGAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (15 bp):
AAGTGAAGGAATTTT
Found at i:23854435 original size:20 final size:21
Alignment explanation
Indices: 23854402--23854448 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
23854392 GAGACAATTG
*
23854402 AATC-AATTTGATTAAAATCA
1 AATCAAATTTGATTAAAATAA
*
23854422 AATCAAATTT-ATTAGAATAA
1 AATCAAATTTGATTAAAATAA
23854442 AAT-AAAT
1 AATCAAAT
23854449 CAGAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (21 bp):
AATCAAATTTGATTAAAATAA
Found at i:23859240 original size:22 final size:22
Alignment explanation
Indices: 23859210--23859251 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
23859200 AGTTGATTTG
*
23859210 TTTAGTCTCCTTCTAAAATTAA
1 TTTAATCTCCTTCTAAAATTAA
23859232 TTTAATCTCCTTCTAAAATT
1 TTTAATCTCCTTCTAAAATT
23859252 TAAAAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTAATCTCCTTCTAAAATTAA
Found at i:23859684 original size:13 final size:13
Alignment explanation
Indices: 23859666--23859690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23859656 TTAGAAGGAG
23859666 ATTAAATTAATTA
1 ATTAAATTAATTA
23859679 ATTAAATTAATT
1 ATTAAATTAATT
23859691 TCAATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATTAATTA
Found at i:23860710 original size:40 final size:40
Alignment explanation
Indices: 23860655--23860816 Score: 324
Period size: 40 Copynumber: 4.0 Consensus size: 40
23860645 TACATCGGCG
23860655 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
1 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
23860695 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
1 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
23860735 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
1 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
23860775 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
1 GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
23860815 GA
1 GA
23860817 TTTACATAAT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (40 bp):
GACGAGATGAAGTCTATCCCAATAATTAAGGGATTTACAA
Found at i:23865500 original size:16 final size:16
Alignment explanation
Indices: 23865479--23865513 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
23865469 GGTTCGCAAG
23865479 AATGGAATAGAAACGT
1 AATGGAATAGAAACGT
*
23865495 AATGGAATAGAGACGT
1 AATGGAATAGAAACGT
23865511 AAT
1 AAT
23865514 AATATTCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.20
Consensus pattern (16 bp):
AATGGAATAGAAACGT
Found at i:23865679 original size:38 final size:39
Alignment explanation
Indices: 23865622--23865698 Score: 147
Period size: 38 Copynumber: 2.0 Consensus size: 39
23865612 ATGATTTTTG
23865622 TTATTGTTATTAAATTTTAATAAGATTATTAAAATCAAT
1 TTATTGTTATTAAATTTTAATAAGATTATTAAAATCAAT
23865661 TTATTGTTA-TAAATTTTAATAAGATTATTAAAATCAAT
1 TTATTGTTATTAAATTTTAATAAGATTATTAAAATCAAT
23865699 AATAAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 29 0.76
39 9 0.24
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (39 bp):
TTATTGTTATTAAATTTTAATAAGATTATTAAAATCAAT
Found at i:23865699 original size:18 final size:18
Alignment explanation
Indices: 23865640--23865700 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
23865630 ATTAAATTTT
23865640 AATAAGATTATTAAAATC
1 AATAAGATTATTAAAATC
** * *
23865658 AAT-TTATTGTTATAAATTTT
1 AATAAGATTATTA-AAA--TC
23865678 AATAAGATTATTAAAATC
1 AATAAGATTATTAAAATC
23865696 AATAA
1 AATAA
23865701 TAAATAATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
17 6 0.19
18 12 0.39
20 7 0.23
21 6 0.19
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (18 bp):
AATAAGATTATTAAAATC
Found at i:23870285 original size:43 final size:43
Alignment explanation
Indices: 23870237--23870335 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
23870227 GGAAAGTTTG
*
23870237 ATGGTAGTTATAACAACGTTAAATGTCCAATTAA-GCAACACTA
1 ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGC-ACACTA
* * * *
23870280 ATGGTAATCATAACCACGCTAAATGTCTAATTAAGGCACACTA
1 ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGCACACTA
23870323 ATGGTAGTTATAA
1 ATGGTAGTTATAA
23870336 GAGAGAGCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 46 0.96
44 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGCACACTA
Found at i:23874244 original size:22 final size:22
Alignment explanation
Indices: 23874219--23874261 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
23874209 TTTGAATGGT
23874219 TTACATTAT-TTTATTTGTTTAG
1 TTACATTATATTTATTT-TTTAG
* *
23874241 TTACTTTTTATTTATTTTTTA
1 TTACATTATATTTATTTTTTA
23874262 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (22 bp):
TTACATTATATTTATTTTTTAG
Found at i:23879644 original size:118 final size:119
Alignment explanation
Indices: 23879517--23879743 Score: 287
Period size: 118 Copynumber: 1.9 Consensus size: 119
23879507 AATACTTTTC
* ** * *
23879517 AAAATATATTGATACCTATTAAATTTTATCAATATTATCTTTTTAAATCAATACCACTTTTGCAT
1 AAAACATATTGATACCTATTAAATTTTATCAATACCACCTTTTTAAACCAATACCACTTTTGCAT
* *
23879582 TCTAACTTCGA-GACTTTT-GAACAATCACAAAAAGTATAGATACTTTAAAAGAA
66 TCTAACTT-GATGACTTTTCAAAAAATCACAAAAAGTATAGATACTTTAAAAGAA
** * * * *
23879635 AAAACATATTGATACCTATTTTATTTTATCTATACCACCTTTTTATACCGATACCACTTTTGTAT
1 AAAACATATTGATACCTATTAAATTTTATCAATACCACCTTTTTAAACCAATACCACTTTTGCAT
* * *
23879700 TCTGACTTGATGATTTTTCAAAAAATCACAAAAAGTATCGATAC
66 TCTAACTTGATGACTTTTCAAAAAATCACAAAAAGTATAGATAC
23879744 CCATTCAAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
117 2 0.02
118 67 0.74
119 22 0.24
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (119 bp):
AAAACATATTGATACCTATTAAATTTTATCAATACCACCTTTTTAAACCAATACCACTTTTGCAT
TCTAACTTGATGACTTTTCAAAAAATCACAAAAAGTATAGATACTTTAAAAGAA
Found at i:23881141 original size:13 final size:13
Alignment explanation
Indices: 23881123--23881147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23881113 TAATTAAGAT
23881123 TCAATCCAAATTA
1 TCAATCCAAATTA
23881136 TCAATCCAAATT
1 TCAATCCAAATT
23881148 TAACACCTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
TCAATCCAAATTA
Found at i:23881881 original size:17 final size:17
Alignment explanation
Indices: 23881831--23881883 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
23881821 TCTGTAAAAA
23881831 ACTTCGTACAATCACAT
1 ACTTCGTACAATCACAT
** * *
23881848 ACCCCGCACAATTACAT
1 ACTTCGTACAATCACAT
*
23881865 ACTTCGTACCATCACAT
1 ACTTCGTACAATCACAT
23881882 AC
1 AC
23881884 AACCTGTACC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (17 bp):
ACTTCGTACAATCACAT
Found at i:23883732 original size:199 final size:199
Alignment explanation
Indices: 23883392--23883788 Score: 776
Period size: 199 Copynumber: 2.0 Consensus size: 199
23883382 CTGTAGTATG
23883392 TAGCATCATTCACAATAGTGGAATTTGTACCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
1 TAGCATCATTCACAATAGTGGAATTTGTACCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
23883457 ATTACATGATACATGAAAAAACGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
66 ATTACATGATACATGAAAAAACGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
*
23883522 TATTTGATAGTAAATGGCTTTTCATGAATGAAGGTGTAATGATTACCATGAGATAAAATAAGATT
131 TATTTGATAGTAAATGGCTTTTCATGAATGAAGATGTAATGATTACCATGAGATAAAATAAGATT
23883587 ATAT
196 ATAT
*
23883591 TAGCATCATTCACAATAGTGGAATTTGTAGCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
1 TAGCATCATTCACAATAGTGGAATTTGTACCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
23883656 ATTACATGATACATGAAAAAACGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
66 ATTACATGATACATGAAAAAACGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
23883721 TATTTGATAGTAAATGGCTTTTCATGAATGAAGATGTAATGATTACCATGAGATAAAATAAGATT
131 TATTTGATAGTAAATGGCTTTTCATGAATGAAGATGTAATGATTACCATGAGATAAAATAAGATT
23883786 ATA
196 ATA
23883789 CTGAGAGAAT
Statistics
Matches: 196, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
199 196 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (199 bp):
TAGCATCATTCACAATAGTGGAATTTGTACCCCAAGACATGAGTAAATGATATCCTCTTATTTGC
ATTACATGATACATGAAAAAACGTAACCACGGGCCATTTGTCTTTGTGATGAATGATTTAATTAC
TATTTGATAGTAAATGGCTTTTCATGAATGAAGATGTAATGATTACCATGAGATAAAATAAGATT
ATAT
Found at i:23884333 original size:41 final size:40
Alignment explanation
Indices: 23884245--23884414 Score: 133
Period size: 41 Copynumber: 4.2 Consensus size: 40
23884235 GATTTTTTGA
* *** * *
23884245 GCCTTTAGCGGCGTTTTTGTAAAAGCGACGCTAATGCTCG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTTG
* * * *
23884285 GATCTTTAGCGGCGTTTCTATCTGGGCGCCGCTAATTCTCTG
1 G-CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCT-TG
* * * * *
23884327 GCCTTTAGCAGTGTTTTTAACTAAGCGCCGCTAATGGTTG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTTG
* * * * *
23884367 GCCTTTCGTGGCGTTTTTGTTTGTGCGCCGCTAATGCTGTG
1 GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCT-TG
23884408 GCCTTTA
1 GCCTTTA
23884415 CCTTTAGCGG
Statistics
Matches: 97, Mismatches: 30, Indels: 5
0.73 0.23 0.04
Matches are distributed among these distances:
40 31 0.32
41 64 0.66
42 2 0.02
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (40 bp):
GCCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGCTTG
Found at i:23894837 original size:49 final size:50
Alignment explanation
Indices: 23894734--23894848 Score: 223
Period size: 50 Copynumber: 2.3 Consensus size: 50
23894724 GCATTTAGTT
23894734 TTTTTTTTAG-TTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTTCTA
1 TTTTTTTTAGTTTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTTCTA
23894783 TTTTTTTTAGTTTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTTCTA
1 TTTTTTTTAGTTTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTTCTA
23894833 TTTTTTTTAGTTTTTT
1 TTTTTTTTAGTTTTTT
23894849 GGCTTTAATT
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 10 0.15
50 55 0.85
ACGTcount: A:0.20, C:0.07, G:0.11, T:0.62
Consensus pattern (50 bp):
TTTTTTTTAGTTTTTTTTAGTTTAGCTAACTTTGTGAGTATAAACTTCTA
Found at i:23899659 original size:43 final size:42
Alignment explanation
Indices: 23899570--23899858 Score: 339
Period size: 43 Copynumber: 6.8 Consensus size: 42
23899560 NNNNNNNNNT
** * * * *
23899570 TTTAGCGGCGTTTTTGACCAAGCGCCGCTACAGAACATTATT
1 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
*
23899612 TTTAGCGGCGTTTTATTTCTAAGAGCCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTT-TTTCTAAGCGCCGCTAAAGAACATGATC
* *
23899655 TTTAGCGGCGTTTTTTCCTAAGTGCCGCTAAA-AACATGATC
1 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
* * *
23899696 TTTAGCGGCGTTTATTTCCTTAGCGCTGCTAAAGAACATGATC
1 TTTAGCGGCGTTT-TTTTCTAAGCGCCGCTAAAGAACATGATC
* *
23899739 TTTAGCGGCG-TTTTTTCATAAGCGCCGCTAAAGAATAGGATC
1 TTTAGCGGCGTTTTTTTC-TAAGCGCCGCTAAAGAACATGATC
* * * *
23899781 TTTAGCAGCATTTATTTCCTTAGCGCCGCTAAAGAACATGATC
1 TTTAGCGGCGTTT-TTTTCTAAGCGCCGCTAAAGAACATGATC
*
23899824 TTTAGCGGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 TTTAGCGGCGTTTTTTTC--TAAGCGCCGCTAAAG
23899859 TTAGCGACGT
Statistics
Matches: 211, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
41 26 0.12
42 80 0.38
43 88 0.42
44 17 0.08
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
Found at i:23899812 original size:85 final size:85
Alignment explanation
Indices: 23899570--23899858 Score: 368
Period size: 85 Copynumber: 3.4 Consensus size: 85
23899560 NNNNNNNNNT
* * * * * * *
23899570 TTTAGCGGCG-TTTTTGACCAAGCGCCGCTACAGAACATTATTTTTAGCGGCGTTTTATTT-CTA
1 TTTAGCGGCGTTTTTTCA-TAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-ATTTATTTCCTT
*
23899633 AGAGCCGCTAAAGAACATGATC
64 AGCGCCGCTAAAGAACATGATC
* * *
23899655 TTTAGCGGCGTTTTTTCCTAAGTGCCGCTAAA-AACATGATCTTTAGCGGCGTTTATTTCCTTAG
1 TTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTCCTTAG
*
23899719 CGCTGCTAAAGAACATGATC
66 CGCCGCTAAAGAACATGATC
* * *
23899739 TTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAATAGGATCTTTAGCAGCATTTATTTCCTTAG
1 TTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTCCTTAG
23899804 CGCCGCTAAAGAACATGATC
66 CGCCGCTAAAGAACATGATC
* *
23899824 TTTAGCGGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 TTTAGCGGCG-TTTTTTC-ATAAGCGCCGCTAAAG
23899859 TTAGCGACGT
Statistics
Matches: 179, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
83 7 0.04
84 68 0.38
85 78 0.44
86 12 0.07
87 14 0.08
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (85 bp):
TTTAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTATTTCCTTAG
CGCCGCTAAAGAACATGATC
Found at i:23902846 original size:25 final size:24
Alignment explanation
Indices: 23902814--23902863 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
23902804 ATATTAATAG
*
23902814 TTTTTAAT-AATTTTCTTTATTTTC
1 TTTTTAATAAATTTTC-TAATTTTC
23902838 TTTTATAATAAATTTTCTAATTTTC
1 TTTT-TAATAAATTTTCTAATTTTC
23902863 T
1 T
23902864 ATATATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 12 0.52
26 7 0.30
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTAATAAATTTTCTAATTTTC
Found at i:23903442 original size:18 final size:17
Alignment explanation
Indices: 23903401--23903440 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
23903391 AAAAAAATCT
23903401 AAAAATCATAAATATATTC
1 AAAAAT-ATAAA-ATATTC
23903420 AAAAA-ATAAAATATTC
1 AAAAATATAAAATATTC
23903436 AAAAA
1 AAAAA
23903441 AATATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.52
17 5 0.24
19 5 0.24
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAATATAAAATATTC
Found at i:23903444 original size:17 final size:17
Alignment explanation
Indices: 23903408--23903441 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
23903398 TCTAAAAATC
23903408 ATAAATATATTCAAAAA
1 ATAAATATATTCAAAAA
23903425 ATAAA-ATATTCAAAAA
1 ATAAATATATTCAAAAA
23903441 A
1 A
23903442 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAATATATTCAAAAA
Found at i:23904018 original size:14 final size:16
Alignment explanation
Indices: 23903985--23904022 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
23903975 GGTAAGAAAA
23903985 AATTATTAAATTACTT
1 AATTATTAAATTACTT
*
23904001 AATT-TTAAA-TAGTT
1 AATTATTAAATTACTT
23904015 AATTATTA
1 AATTATTA
23904023 TGTTGTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 8 0.40
16 4 0.20
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTATTAAATTACTT
Found at i:23907887 original size:26 final size:25
Alignment explanation
Indices: 23907858--23907912 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
23907848 TGATACTCTA
* *
23907858 TTTTCAA-CATATGTTTCCAAGTTATG
1 TTTTCAAGC-TATGTTT-AAAGATATG
*
23907884 TTTTTAAGCTATGTTTAAAGATATG
1 TTTTCAAGCTATGTTTAAAGATATG
23907909 TTTT
1 TTTT
23907913 ATGCACGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 11 0.44
26 13 0.52
27 1 0.04
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (25 bp):
TTTTCAAGCTATGTTTAAAGATATG
Found at i:23907969 original size:14 final size:13
Alignment explanation
Indices: 23907934--23907982 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
23907924 TATGTGAGCC
23907934 TATGTTTTAAAAG
1 TATGTTTTAAAAG
*
23907947 CATGTTTTAAAAG
1 TATGTTTTAAAAG
*
23907960 TATAGTTTTATAAG
1 TAT-GTTTTAAAAG
23907974 CTATGTTTT
1 -TATGTTTT
23907983 TGCTAGCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 14 0.45
14 14 0.45
15 3 0.10
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (13 bp):
TATGTTTTAAAAG
Found at i:23924846 original size:43 final size:42
Alignment explanation
Indices: 23924793--23924935 Score: 112
Period size: 42 Copynumber: 3.3 Consensus size: 42
23924783 CCACTACAAC
*
23924793 CGAGGGAGGCAATGCTTTGTTTTTGATCTGCTTCGCTGTTAA
1 CGAGGAAGGCAATGCTTTGTTTTTGATCTGCTTCGCTGTTAA
* * * * * * *
23924835 CGTAGGAAGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-TAA
1 CG-AGGAAGGCAATGCTTTG-T-T-TTTGATCTGCTTCGCTGTTAA
* *
23924879 CCGATGG-AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
1 -CGA-GGAAGGCAATGCTTTGTTTTTGATCTGCTTCGCTGTTAA
23924922 CGCAGGAAGGCAAT
1 CG-AGGAAGGCAAT
23924936 ATCTGCTATC
Statistics
Matches: 74, Mismatches: 17, Indels: 19
0.67 0.15 0.17
Matches are distributed among these distances:
42 21 0.28
43 21 0.28
44 12 0.16
45 20 0.27
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (42 bp):
CGAGGAAGGCAATGCTTTGTTTTTGATCTGCTTCGCTGTTAA
Found at i:23924848 original size:87 final size:87
Alignment explanation
Indices: 23924749--23925031 Score: 397
Period size: 87 Copynumber: 3.3 Consensus size: 87
23924739 CACTATCGAT
* * * *
23924749 GCAGGAGGGCAAGATATGCTATCTTTAACCAGCTCCACTACAACCGAGGGAGGCAATGCTTTGTT
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTT
*
23924814 TTTGATCTGCTTCGCTGTTAAC
66 TTCGATCTGCTTCGCTGTTAAC
* **
23924836 GTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTT
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTT
23924901 TTCGATCTGCTTCGCTGTTAAC
66 TTCGATCTGCTTCGCTGTTAAC
* * * * *
23924923 GCAGGAAGGCAATATCTGCTATCTTTAAACAACTCCATTACAACCGATAGAGGCAAGGC-TTGTA
1 GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGT-
* * *
23924987 TCTCGATCTGCTTCGCTGTCAAT
65 TTTCGATCTGCTTCGCTGTTAAC
*
23925010 GCAGGAAGGCAAGATTTGCTAT
1 GCAGGAAGGCAAGATCTGCTAT
23925032 TTTCACTGAT
Statistics
Matches: 174, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 4 0.02
87 170 0.98
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (87 bp):
GCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTT
TTCGATCTGCTTCGCTGTTAAC
Found at i:23927185 original size:30 final size:28
Alignment explanation
Indices: 23927130--23927208 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 28
23927120 TCTTTTCATA
**
23927130 TTTTATTTTGACTTTGATTGATTTCTCTT
1 TTTTATTTTGACTTTGATTTTTTTCT-TT
23927159 TTTTACTTTTGACTTTGATTTTTTTCTTT
1 TTTTA-TTTTGACTTTGATTTTTTTCTTT
* * *
23927188 TCTGATTTTGATTTTGATTTT
1 TTTTATTTTGACTTTGATTTT
23927209 GATTTTGATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 15 0.34
29 10 0.23
30 19 0.43
ACGTcount: A:0.13, C:0.09, G:0.10, T:0.68
Consensus pattern (28 bp):
TTTTATTTTGACTTTGATTTTTTTCTTT
Found at i:23927362 original size:10 final size:9
Alignment explanation
Indices: 23927343--23927374 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
23927333 TTGATTTTGA
23927343 TTTTGATTTT
1 TTTTG-TTTT
23927353 TTTTGTTTT
1 TTTTGTTTT
23927362 TTTTGTTTT
1 TTTTGTTTT
23927371 TTTT
1 TTTT
23927375 AAATCTGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:23927371 original size:6 final size:6
Alignment explanation
Indices: 23927190--23927352 Score: 326
Period size: 6 Copynumber: 27.2 Consensus size: 6
23927180 TTTTCTTTTC
23927190 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
23927238 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
23927286 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
23927334 TGATTT TGATTT TGATTT T
1 TGATTT TGATTT TGATTT T
23927353 TTTTGTTTTT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 157 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
TGATTT
Found at i:23935473 original size:12 final size:12
Alignment explanation
Indices: 23935456--23935488 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
23935446 GGGCCACACA
*
23935456 CCCGTGTCCTTG
1 CCCGTGTCCTAG
23935468 CCCGTGTCCTAG
1 CCCGTGTCCTAG
23935480 CCCGTGTCC
1 CCCGTGTCC
23935489 AAACTAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.45, G:0.24, T:0.27
Consensus pattern (12 bp):
CCCGTGTCCTAG
Found at i:23937304 original size:9 final size:9
Alignment explanation
Indices: 23937279--23937311 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
23937269 CATAGCAGGC
23937279 CACACATTT
1 CACACATTT
23937288 CACA-ATTT
1 CACACATTT
23937296 CACACATTT
1 CACACATTT
*
23937305 AACACAT
1 CACACAT
23937312 AATTTTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (9 bp):
CACACATTT
Found at i:23947806 original size:26 final size:24
Alignment explanation
Indices: 23947777--23947825 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
23947767 CACTTTAATT
23947777 TGTCTAAACAATAGACACAATTAAAG
1 TGTCTAAACAA-AGAC-CAATTAAAG
* *
23947803 TGTCTGAACTAAGACCAATTAAA
1 TGTCTAAACAAAGACCAATTAAA
23947826 CACATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 4 0.19
26 9 0.43
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
TGTCTAAACAAAGACCAATTAAAG
Found at i:23949729 original size:25 final size:25
Alignment explanation
Indices: 23949672--23949721 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
23949662 TTGTAGCACC
*
23949672 AACTCAATCAAATACATTATTAATA
1 AACTCAATCAAATACATTATGAATA
23949697 AACTCAATCAAATACATTATGAATA
1 AACTCAATCAAATACATTATGAATA
23949722 TGTACAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (25 bp):
AACTCAATCAAATACATTATGAATA
Found at i:23949775 original size:18 final size:20
Alignment explanation
Indices: 23949738--23949782 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
23949728 ATTGAAGGTC
*
23949738 ATAAAATGTGAATAATAAAAT
1 ATAAAATGT-AATAAAAAAAT
23949759 -TAAAATGT-ATAAAAAAAT
1 ATAAAATGTAATAAAAAAAT
23949777 ATAAAA
1 ATAAAA
23949783 GAAAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 5 0.23
20 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
ATAAAATGTAATAAAAAAAT
Found at i:23955938 original size:40 final size:40
Alignment explanation
Indices: 23955887--23956003 Score: 207
Period size: 40 Copynumber: 2.9 Consensus size: 40
23955877 CGTTTGGAGC
* **
23955887 AAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTAATT
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
23955927 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
23955967 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
23956004 TAGACAACGC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.21
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
Found at i:23956151 original size:112 final size:112
Alignment explanation
Indices: 23955951--23956325 Score: 687
Period size: 112 Copynumber: 3.3 Consensus size: 112
23955941 AGAGTGAGCA
*
23955951 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGACAACGCCG
1 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
* *
23956016 CAAATAATACACCCAGACAGTGCCGTTTTATGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
** * *
23956063 TTAGTGGCGTTTATTGTAAAGCGGCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
23956128 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
23956175 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
23956240 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
23956287 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGC
1 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGC
23956326 NNNNNNNNNN
Statistics
Matches: 252, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 252 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (112 bp):
TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:23957917 original size:84 final size:84
Alignment explanation
Indices: 23957809--23958145 Score: 575
Period size: 84 Copynumber: 4.0 Consensus size: 84
23957799 CAATCTAAAG
23957809 TAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTT
1 TAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTT
*
23957874 TTTAGGAAAACGCCACAAA
66 TTTAGAAAAACGCCACAAA
23957893 TAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTT
1 TAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTT
*
23957958 TTTAGGAAAACGCCACAAA
66 TTTAGAAAAACGCCACAAA
* * *
23957977 TAATGCAATTCCAGACCACGAAAATGGTGTCGTTTCTATTCACAGCTGTAATATTTAGTGGCGTT
1 TAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTT
**
23958042 TTTCTAAAAACGCCACAAA
66 TTTAGAAAAACGCCACAAA
* *
23958061 AAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGCTGTAATATTTAGTGGCGTT
1 TAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTT
*
23958126 TTTACCAAAAACGCCACAAA
66 TTTA-GAAAAACGCCACAAA
23958146 ACGGTGTTAA
Statistics
Matches: 241, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
84 227 0.94
85 14 0.06
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (84 bp):
TAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGATGTAATATTTAGTGGCGTT
TTTAGAAAAACGCCACAAA
Found at i:23981175 original size:21 final size:21
Alignment explanation
Indices: 23981149--23981216 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
23981139 CTACAACTTA
* *
23981149 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
23981170 AAGCAGTGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
23981191 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
23981212 AAGCA
1 AAGCA
23981217 AAGCAGAGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.47, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:23981600 original size:42 final size:42
Alignment explanation
Indices: 23981491--23981797 Score: 463
Period size: 42 Copynumber: 7.3 Consensus size: 42
23981481 GTTTTTGTAC
* *
23981491 AGCGGCGTTTTTCTCTAAGCGCCGTTAAAGAACATGGTCTTT
1 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
* *
23981533 AGCGGTGTTTTTTTTATAAGCGCCGCTAAAGAACATGGTCTTT
1 AGCGGCG-TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
* *
23981576 AGAGGCGTTTTTTTCTAAGTGCCGCTAAAGAACATGGTCTTT
1 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
** * *
23981618 AAAGGC-TTTTTTTCTAAGCGCCACTAAAGAACATGTTCTTT
1 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
* *
23981659 AGCGGCGTTTTTTTTCTAAGCGCCGCTAAAAAACATGTTCTTT
1 AGCGGCG-TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
*
23981702 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTT
1 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
*
23981744 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTT
1 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
23981786 AGCGGCGTTTTT
1 AGCGGCGTTTTT
23981798 GTTTTCAAAC
Statistics
Matches: 244, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
41 36 0.15
42 131 0.54
43 77 0.32
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (42 bp):
AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
Found at i:23981672 original size:85 final size:83
Alignment explanation
Indices: 23981491--23981786 Score: 412
Period size: 85 Copynumber: 3.5 Consensus size: 83
23981481 GTTTTTGTAC
* * ** * *
23981491 AGCGGCGTTTTTCTCTAAGCGCCGTTAAAGAACATGGTCTTTAGCGGTGTTTTTTTTATAAGCGC
1 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA-AAG-GCTTTTTTTCTAAGCGC
*
23981556 CGCTAAAGAACATGGTCTTT
64 CGCTAAAGAACATGATCTTT
* * *
23981576 AGAGGCGTTTTTTTCTAAGTGCCGCTAAAGAACATGGTCTTTAAAGGCTTTTTTTCTAAGCGCCA
1 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAAGGCTTTTTTTCTAAGCGCCG
*
23981641 CTAAAGAACATGTTCTTT
66 CTAAAGAACATGATCTTT
* * **
23981659 AGCGGCGTTTTTTTTCTAAGCGCCGCTAAAAAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
1 AGCGGCG-TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAAGGC-TTTTTTTCTAAGCGC
23981724 CGCTAAAGAACATGATCTTT
64 CGCTAAAGAACATGATCTTT
*
23981744 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
1 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
23981787 GCGGCGTTTT
Statistics
Matches: 189, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
83 39 0.21
84 71 0.38
85 79 0.42
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (83 bp):
AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAAGGCTTTTTTTCTAAGCGCCG
CTAAAGAACATGATCTTT
Found at i:23991089 original size:15 final size:16
Alignment explanation
Indices: 23991051--23991097 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
23991041 TAACAAAGTA
**
23991051 TAAAAATTATTATTTT
1 TAAAAATTATTAAATT
*
23991067 TAATAATT-TTAAATT
1 TAAAAATTATTAAATT
23991082 TAAAAATTAATTAAAT
1 TAAAAATT-ATTAAAT
23991098 GTTGACATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 12 0.48
16 7 0.28
17 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAAAATTATTAAATT
Found at i:23992243 original size:19 final size:19
Alignment explanation
Indices: 23992219--23992257 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23992209 CGCAAAATGA
*
23992219 TTTCTGGAAAATGTTTTAC
1 TTTCTGGAAAATGATTTAC
*
23992238 TTTCTGTAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
23992257 T
1 T
23992258 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TTTCTGGAAAATGATTTAC
Found at i:23993080 original size:10 final size:9
Alignment explanation
Indices: 23993058--23993091 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
23993048 AACAAAACAG
23993058 AAAAATTTT
1 AAAAATTTT
23993067 AAAAATTTT
1 AAAAATTTT
23993076 AAAAATTTT
1 AAAAATTTT
23993085 AGAAAAT
1 A-AAAAT
23993092 AGGGGTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:23993272 original size:54 final size:55
Alignment explanation
Indices: 23993171--23993275 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
23993161 TGTGGCCAAA
* * *
23993171 CCGTGTACAATTCAAAATAAGGGTCACACAGTCGTGTCTCAACCTATGTGCCTGC
1 CCGTGTACAAATCAAAATAAGAGTCACACAGTCGTGTCGCAACCTATGTGCCTGC
*
23993226 CCGTGTGCAAATCAAAATAA-AGTCACACAG-CTGTGTCGCAGA-CTATGTGC
1 CCGTGTACAAATCAAAATAAGAGTCACACAGTC-GTGTCGCA-ACCTATGTGC
23993276 TAGACCGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
53 1 0.02
54 24 0.55
55 19 0.43
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (55 bp):
CCGTGTACAAATCAAAATAAGAGTCACACAGTCGTGTCGCAACCTATGTGCCTGC
Found at i:23993284 original size:54 final size:55
Alignment explanation
Indices: 23993170--23993286 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 55
23993160 GTGTGGCCAA
* * * *
23993170 ACCGTGTACAATTCAAAATAAGGGTCACACAGTCGTGTCTCAACCTATGTGCCTG
1 ACCGTGTGCAAATCAAAATAAGAGTCACACAGTCGTGTCGCAACCTATGTGCCTG
*
23993225 CCCGTGTGCAAATCAAAATAA-AGTCACACAG-CTGTGTCGCAGA-CTATGTG-CTAG
1 ACCGTGTGCAAATCAAAATAAGAGTCACACAGTC-GTGTCGCA-ACCTATGTGCCT-G
23993279 ACCGTGTG
1 ACCGTGTG
23993287 AGTATTCGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
53 3 0.06
54 31 0.58
55 19 0.36
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (55 bp):
ACCGTGTGCAAATCAAAATAAGAGTCACACAGTCGTGTCGCAACCTATGTGCCTG
Found at i:23996041 original size:198 final size:197
Alignment explanation
Indices: 23995702--23996092 Score: 638
Period size: 198 Copynumber: 2.0 Consensus size: 197
23995692 CACCAAGATT
* * * *
23995702 AATATTTCTAACCTTTCTTTAGGTAGAATACCAAACGTTTATGCCATAAGTAAGTAAAATTTTCA
1 AATATTTCTAACCTTTCTTTAGGTACAAGACCAAACGTTTATGCCACAAGTAAGCAAAATTTTCA
*
23995767 TTTAGCATACTACGCTTAATTCCAACATGATATGATCAATAAGTAAGGATTCCACAAAGACATTA
66 TTTAGCATACTACGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCACAAAGACATTA
*
23995832 TCAAGTTTCAATTTATATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTTTA
131 TCAAGTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTTTA
23995897 CG
196 CG
* * * *
23995899 AATATTTTTAACCTTTCTTTGGGTACAAGACCCAAACGTTTATGCCACAAGTACGCAGAATTTTC
1 AATATTTCTAACCTTTCTTTAGGTACAAGA-CCAAACGTTTATGCCACAAGTAAGCAAAATTTTC
* *
23995964 ATTTAGCATACTATGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCATAAAGACATT
65 ATTTAGCATACTACGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCACAAAGACATT
* * *
23996029 ATCAATTTTCAATTTAGATAAACCATCAATAAGACTTCTTGAACCTAAGAAAATTATTATTCTT
130 ATCAAGTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTT
23996093 AAATAAACTA
Statistics
Matches: 178, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
197 26 0.15
198 152 0.85
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (197 bp):
AATATTTCTAACCTTTCTTTAGGTACAAGACCAAACGTTTATGCCACAAGTAAGCAAAATTTTCA
TTTAGCATACTACGCTTAATTCCAACATGATATGATCAACAAGTAAGGATTCCACAAAGACATTA
TCAAGTTTCAATTTAGATAAACCATCAATAAGACTTCCTGAACCTAAGAAAAGTATTATTCTTTA
CG
Found at i:23999753 original size:89 final size:88
Alignment explanation
Indices: 23999540--23999777 Score: 223
Period size: 89 Copynumber: 2.7 Consensus size: 88
23999530 TCTAACCCAG
* * * * * *
23999540 TGCAACTTCAGAG-G-TATAGAATTTGTCTCTTCAATCTACTCCACTGCATCTTCAGGGAGATAA
1 TGCAACTTCAGAGAGATA-AG-ACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGATAA
23999603 GATTAGTAACTTCGTCCTACTCCAC
64 GATTAGTAACTTCGTCCTACTCCAC
* ** * * * * *
23999628 TGCATCTTCAGAGAGATAAGGTTTATAGCTTTAATCTGCTCTACTATAACTTCAGAGAGATAAGA
1 TGCAACTTCAGAGAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGA
* * *
23999693 TTTGCTATCTTCAGT-CTGCTCCAC
66 TTAG-TAACTTC-GTCCTACTCCAC
* * *
23999717 TGCAACTTCA-AGGAGATAAGACTTGTATCTTCAATCTGCCCCACTGCAACTTCAGGGAGAT
1 TGCAACTTCAGA-GAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGAT
23999778 TTGATTGTAA
Statistics
Matches: 119, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
88 50 0.42
89 65 0.55
90 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (88 bp):
TGCAACTTCAGAGAGATAAGACTTGTATCTTCAATCTGCTCCACTACAACTTCAGAGAGATAAGA
TTAGTAACTTCGTCCTACTCCAC
Found at i:23999761 original size:44 final size:44
Alignment explanation
Indices: 23999560--23999777 Score: 199
Period size: 44 Copynumber: 4.9 Consensus size: 44
23999550 GAGGTATAGA
* * * *
23999560 ATTTGTCTCTTCAATCTACTCCACTGCATCTTCAGGGAGATAAG
1 ATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG
* * * * *
23999604 ATTAGTAACTTC-GTCCTACTCCACTGCATCTTC-AGAGAGATAAG
1 ATTTGTATCTTCAAT-CTGCTCCACTGCAACTTCAAG-GAGATAAG
* * * * * **
23999648 GTTTATAGCTTTAATCTGCTCTACTATAACTTC-AGAGAGATAAG
1 ATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAG
*
23999692 ATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAG
1 ATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG
* * *
23999737 ACTTGTATCTTCAATCTGCCCCACTGCAACTTCAGGGAGAT
1 ATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGAT
23999778 TTGATTGTAA
Statistics
Matches: 141, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
43 2 0.01
44 102 0.72
45 35 0.25
46 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
ATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG
Found at i:23999976 original size:96 final size:96
Alignment explanation
Indices: 23999742--23999977 Score: 296
Period size: 96 Copynumber: 2.5 Consensus size: 96
23999732 ATAAGACTTG
* * * * *
23999742 TATCTTCAATCTGCCCCACTGCAACTTCAGGGAGATTTGA-TTGTAATTTGTAGCCTTAATTTGT
1 TATCTTTAATCTGCTCCACTGCAACTTCAGAGAGATTCGATTTGTAATTTGTAGCCTTAATCTGT
** * * *
23999806 TCTGCTGCAAGTTTAGGGAAATAAGATTCGC
66 TCCACTGCAACTTTAGGGAAACAAGATTCAC
* * * * *
23999837 TATCTATAGTCTGCTCCACTGCAACTTCA-AGGGGATCCAATTTGTAATTTGTAGCCTTAATCTG
1 TATCTTTAATCTGCTCCACTGCAACTTCAGA-GAGATTCGATTTGTAATTTGTAGCCTTAATCTG
23999901 TTCCACTGCAACTTTAGGGAAACAAGATTCAC
65 TTCCACTGCAACTTTAGGGAAACAAGATTCAC
* *
23999933 TATCTTTAACCTGCTCCACTGTAACTTCAGAGAGATTCGATTTGT
1 TATCTTTAATCTGCTCCACTGCAACTTCAGAGAGATTCGATTTGT
23999978 GGCTTTAATC
Statistics
Matches: 116, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
95 30 0.26
96 85 0.73
97 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (96 bp):
TATCTTTAATCTGCTCCACTGCAACTTCAGAGAGATTCGATTTGTAATTTGTAGCCTTAATCTGT
TCCACTGCAACTTTAGGGAAACAAGATTCAC
Found at i:24003054 original size:31 final size:32
Alignment explanation
Indices: 24002994--24003056 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
24002984 AGGCAAATTA
24002994 CAAGAGTAATTAAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTAAATCCTAATAAAAACTCTTT
*
24003026 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTAAATCCTAATAAAAACTCTTT
24003057 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 10 0.33
32 20 0.67
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTAAATCCTAATAAAAACTCTTT
Found at i:24008809 original size:80 final size:80
Alignment explanation
Indices: 24008676--24008834 Score: 300
Period size: 80 Copynumber: 2.0 Consensus size: 80
24008666 ACCCAATTTA
*
24008676 AAAAAAAAAATCGGAAACATTTGGTGTCTTAAGATTTTCAAAAATTGAAGCTTTAATTATACTTG
1 AAAAAAAAAATCGGAAACATTTGGTGTCTTAAGATTTTCAAAAATTAAAGCTTTAATTATACTTG
24008741 AGTCAAGAAAAGAAG
66 AGTCAAGAAAAGAAG
*
24008756 AAAAAAAAAATCGGAAACGTTTGGTGTCTTAAGATTTTCAAAAATTAAAGCTTTAATTATACTTG
1 AAAAAAAAAATCGGAAACATTTGGTGTCTTAAGATTTTCAAAAATTAAAGCTTTAATTATACTTG
24008821 AGTCAAGAAAAGAA
66 AGTCAAGAAAAGAA
24008835 TAAGGAAAAG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (80 bp):
AAAAAAAAAATCGGAAACATTTGGTGTCTTAAGATTTTCAAAAATTAAAGCTTTAATTATACTTG
AGTCAAGAAAAGAAG
Found at i:24008960 original size:21 final size:21
Alignment explanation
Indices: 24008936--24008975 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24008926 TTTTTTTCGG
24008936 TTTTTTTTTTGCGCTTTTTGT
1 TTTTTTTTTTGCGCTTTTTGT
*
24008957 TTTTTTTTTTGCGGTTTTT
1 TTTTTTTTTTGCGCTTTTT
24008976 TTGCGCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.15, T:0.78
Consensus pattern (21 bp):
TTTTTTTTTTGCGCTTTTTGT
Found at i:24015248 original size:19 final size:20
Alignment explanation
Indices: 24015217--24015270 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
24015207 GGGTCTTTTG
* *
24015217 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGCA
*
24015236 TGCAATGTAATGCAAATGCA
1 TGAAATGTAATGCAAATGCA
24015256 TGAAATG-AATGCAAA
1 TGAAATGTAATGCAAA
24015271 AAGAGGTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGCA
Found at i:24020463 original size:48 final size:49
Alignment explanation
Indices: 24020402--24020506 Score: 194
Period size: 48 Copynumber: 2.1 Consensus size: 49
24020392 AACACCTCCC
24020402 TCAAGTGTCCCACGTGCTCCTCAAGAGACTTGCTATACACCACAATATCA
1 TCAAG-GTCCCACGTGCTCCTCAAGAGACTTGCTATACACCACAATATCA
24020452 TCAAGGT-CCACGTGCTCCTCAAGAGACTTGCTATACACCACAATATCA
1 TCAAGGTCCCACGTGCTCCTCAAGAGACTTGCTATACACCACAATATCA
24020500 TCAAGGT
1 TCAAGGT
24020507 AAACAACCAC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 48 0.87
49 2 0.04
50 5 0.09
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (49 bp):
TCAAGGTCCCACGTGCTCCTCAAGAGACTTGCTATACACCACAATATCA
Found at i:24024631 original size:19 final size:19
Alignment explanation
Indices: 24024607--24024643 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24024597 TAAATGAACA
*
24024607 AATAATTACAATAATAATT
1 AATAATAACAATAATAATT
*
24024626 AATAATAACAGTAATAAT
1 AATAATAACAATAATAAT
24024644 ATCAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
AATAATAACAATAATAATT
Found at i:24026165 original size:157 final size:157
Alignment explanation
Indices: 24025899--24026215 Score: 634
Period size: 157 Copynumber: 2.0 Consensus size: 157
24025889 AAGTTGTCCA
24025899 CATCTCTTACGGACCTTGTTCCCCTGAACTCCTTGGGCTTGGGAACATCAATATTGGGCTTAGGT
1 CATCTCTTACGGACCTTGTTCCCCTGAACTCCTTGGGCTTGGGAACATCAATATTGGGCTTAGGT
24025964 GCGACAACAACTAACCCACCATTGCCCAAAGCAGCCTTGTAGATTGTGACTTCACCCTTGAGCTC
66 GCGACAACAACTAACCCACCATTGCCCAAAGCAGCCTTGTAGATTGTGACTTCACCCTTGAGCTC
24026029 CGCAATCTCCCCTTTCAAGGCCTCTAC
131 CGCAATCTCCCCTTTCAAGGCCTCTAC
24026056 CATCTCTTACGGACCTTGTTCCCCTGAACTCCTTGGGCTTGGGAACATCAATATTGGGCTTAGGT
1 CATCTCTTACGGACCTTGTTCCCCTGAACTCCTTGGGCTTGGGAACATCAATATTGGGCTTAGGT
24026121 GCGACAACAACTAACCCACCATTGCCCAAAGCAGCCTTGTAGATTGTGACTTCACCCTTGAGCTC
66 GCGACAACAACTAACCCACCATTGCCCAAAGCAGCCTTGTAGATTGTGACTTCACCCTTGAGCTC
24026186 CGCAATCTCCCCTTTCAAGGCCTCTAC
131 CGCAATCTCCCCTTTCAAGGCCTCTAC
24026213 CAT
1 CAT
24026216 AGCCTCAATG
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 160 1.00
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.27
Consensus pattern (157 bp):
CATCTCTTACGGACCTTGTTCCCCTGAACTCCTTGGGCTTGGGAACATCAATATTGGGCTTAGGT
GCGACAACAACTAACCCACCATTGCCCAAAGCAGCCTTGTAGATTGTGACTTCACCCTTGAGCTC
CGCAATCTCCCCTTTCAAGGCCTCTAC
Found at i:24028569 original size:72 final size:70
Alignment explanation
Indices: 24028487--24028738 Score: 208
Period size: 73 Copynumber: 3.6 Consensus size: 70
24028477 ATTGAAGTAT
* * * *
24028487 TTAAAA-AATAAATAAATAAATAAATTGATAAAACCAATATGAACAATATCGAATTTAA-AATTT
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGAA--T
*
24028550 CTTTAAAA
64 -TTGAAAA
* * * *
24028558 TTAAAAGAATAAATAAGTGAATAAATAGATAAAACAAATATAAACAATATTAAATTTAAGCATTT
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGAATTT
24028623 GAAAA
66 GAAAA
* ** ** * *
24028628 GTAAAAGAATAATAAATAAATAAATAAATAGATAAAGTAAATATTCATAATATTAAATTTAA-AT
1 TTAAAAG---AATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGA-
*
24028692 ATTTTAAAA
62 ATTTGAAAA
* * * * *
24028701 GTAAAAGAAT-GATAAATAAATGAGTAAATAAAA-AAATA
1 TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATA
24028739 AATATATAGT
Statistics
Matches: 151, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
68 5 0.03
69 18 0.12
70 15 0.10
71 7 0.05
72 45 0.30
73 61 0.40
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (70 bp):
TTAAAAGAATAAATAAATAAATAAATAGATAAAACAAATATAAACAATATCAAATTTAAGAATTT
GAAAA
Found at i:24028670 original size:73 final size:73
Alignment explanation
Indices: 24028565--24028744 Score: 236
Period size: 73 Copynumber: 2.5 Consensus size: 73
24028555 AAATTAAAAG
* * *
24028565 AATAAATAAGTGAATAAATAGATAAAACAAATATAAACAATATTAAATTTAAGCATTTGAAAAGT
1 AATAAATAAATGAATAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAGT
24028630 AAAAGAAT
66 AAAAGAAT
* * ** * * *
24028638 AATAAATAAATAAATAAATAGATAAAGTAAATATTCATAATATTAAATTTAAATATTTTAAAAGT
1 AATAAATAAATGAATAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAGT
24028703 AAAAGAAT
66 AAAAGAAT
* * *
24028711 GATAAATAAATGAGTAAATA-AAAAAATAAATATA
1 AATAAATAAATGAATAAATAGATAAAATAAATATA
24028745 TAGTATTAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
72 11 0.12
73 80 0.88
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (73 bp):
AATAAATAAATGAATAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAGT
AAAAGAAT
Found at i:24049609 original size:22 final size:22
Alignment explanation
Indices: 24049551--24049621 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
24049541 ATGTGCTTAA
*
24049551 AATAAATATAAATGTTATATATAT
1 AATAATTA-AAATG-TATATATAT
* *
24049575 ATTAACTT-TAATGTATATATAT
1 AATAA-TTAAAATGTATATATAT
*
24049597 AATAATTAAAATG-A-ATGTAT
1 AATAATTAAAATGTATATATAT
24049617 AATAA
1 AATAA
24049622 AAGAAAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 10 0.26
21 3 0.08
22 17 0.44
23 4 0.10
24 4 0.10
25 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (22 bp):
AATAATTAAAATGTATATATAT
Found at i:24052291 original size:49 final size:48
Alignment explanation
Indices: 24052219--24052313 Score: 136
Period size: 49 Copynumber: 2.0 Consensus size: 48
24052209 TCTAGAAGAG
* * * *
24052219 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACTAAGTTTAACAATGT
1 ATAAATAGTGATAAGACTATAGACAATAGAAGACCAAGTTT-ACAATGT
*
24052268 ATAAATAGTGATAAGACTGTAGACAATAGAAGACCAAGTTTACAAT
1 ATAAATAGTGATAAGACTATAGACAATAGAAGACCAAGTTTACAAT
24052314 TGCATAGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 5 0.12
49 36 0.88
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.25
Consensus pattern (48 bp):
ATAAATAGTGATAAGACTATAGACAATAGAAGACCAAGTTTACAATGT
Found at i:24057710 original size:12 final size:12
Alignment explanation
Indices: 24057693--24057722 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24057683 CAAATTTAAC
24057693 AAAGAAAGAAAA
1 AAAGAAAGAAAA
*
24057705 AAAGAAAGAAGA
1 AAAGAAAGAAAA
24057717 AAAGAA
1 AAAGAA
24057723 GAAGCTGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:24057718 original size:15 final size:16
Alignment explanation
Indices: 24057693--24057725 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24057683 CAAATTTAAC
24057693 AAAGAAAGAAAAAAAG
1 AAAGAAAGAAAAAAAG
*
24057709 AAAG-AAGAAAAGAAG
1 AAAGAAAGAAAAAAAG
24057724 AA
1 AA
24057726 GCTGGTCACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAAAAAG
Found at i:24061495 original size:35 final size:36
Alignment explanation
Indices: 24061432--24061507 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
24061422 AGGTAAGTTC
* * *
24061432 ATATAGTGTAATTTTGTTTAAGTCCTTATGTATGTT
1 ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
*
24061468 ATATTGTG-AATTATGTTTAAATGCTTATGTATGTT
1 ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
24061503 ATATT
1 ATATT
24061508 TTTCCAGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 29 0.81
36 7 0.19
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.53
Consensus pattern (36 bp):
ATATTGTGTAATTATGTTTAAATCCTTATGTATGTT
Found at i:24063639 original size:21 final size:21
Alignment explanation
Indices: 24063591--24063631 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24063581 TGGGTGGATT
* *
24063591 AACTTTTATGAGCTTCTGTTA
1 AACTCTTACGAGCTTCTGTTA
24063612 AACTCTTACGAGCTTCTGTT
1 AACTCTTACGAGCTTCTGTT
24063632 CAGCTCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (21 bp):
AACTCTTACGAGCTTCTGTTA
Found at i:24064614 original size:12 final size:12
Alignment explanation
Indices: 24064597--24064623 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24064587 TCAGGTAGTT
24064597 ACATGGCCTAGC
1 ACATGGCCTAGC
24064609 ACATGGCCTAGC
1 ACATGGCCTAGC
24064621 ACA
1 ACA
24064624 CGGGCATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:24068028 original size:38 final size:39
Alignment explanation
Indices: 24067986--24068067 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
24067976 TATAATTATT
*
24067986 TCATAATTTGAACATCATTAATATGAG-TTTTAATCATG
1 TCATAATTTGAACATCATTAATAAGAGTTTTTAATCATG
* * * *
24068024 TCATAGTTTGAACATCTTTAATAAGGGTTTTTAATTATG
1 TCATAATTTGAACATCATTAATAAGAGTTTTTAATCATG
24068063 TCATA
1 TCATA
24068068 GTTTAGGACA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 23 0.61
39 15 0.39
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (39 bp):
TCATAATTTGAACATCATTAATAAGAGTTTTTAATCATG
Found at i:24068067 original size:39 final size:38
Alignment explanation
Indices: 24067978--24068122 Score: 134
Period size: 39 Copynumber: 3.8 Consensus size: 38
24067968 TTTAAGTATA
* * * *
24067978 TAATTATTTCATAATTTGAACATCATTAATATGAGTTT
1 TAATTATGTCATAGTTTGAACATCTTTAATAAGAGTTT
* *
24068016 TAATCATGTCATAGTTTGAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAGTTTGAACATCTTTAATAAGAG-TTT
* *
24068055 TAATTATGTCATAGTTTAGGACAT-TTTAAATATA-TGTTT
1 TAATTATGTCATAGTTT-GAACATCTTT-AATA-AGAGTTT
* *
24068094 TAAATATGTCCTAGTTT-AGACATCTTTAA
1 TAATTATGTCATAGTTTGA-ACATCTTTAA
24068123 CACAAGTCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
38 35 0.39
39 43 0.48
40 10 0.11
41 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (38 bp):
TAATTATGTCATAGTTTGAACATCTTTAATAAGAGTTT
Found at i:24074213 original size:26 final size:23
Alignment explanation
Indices: 24074180--24074232 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
24074170 CGAAAGAACA
24074180 AAAAGAAAATTTTGAAAAAGAAAAAG
1 AAAAGAAAA--TTGAAAAA-AAAAAG
*
24074206 AAAAGAAAATTGAAAAAAAAAGG
1 AAAAGAAAATTGAAAAAAAAAAG
24074229 AAAA
1 AAAA
24074233 TAAGAGGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 9 0.35
24 8 0.31
26 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (23 bp):
AAAAGAAAATTGAAAAAAAAAAG
Found at i:24074222 original size:18 final size:18
Alignment explanation
Indices: 24074199--24074233 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24074189 TTTTGAAAAA
24074199 GAAAAAGAAAA-GAAAATT
1 GAAAAA-AAAAGGAAAATT
24074217 GAAAAAAAAAGGAAAAT
1 GAAAAAAAAAGGAAAAT
24074234 AAGAGGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (18 bp):
GAAAAAAAAAGGAAAATT
Found at i:24077388 original size:38 final size:39
Alignment explanation
Indices: 24077328--24077417 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 39
24077318 TTTAAGTCTA
* * *
24077328 TAATTATGTCATAATTTGAACATCATTAATATGAG-TTT
1 TAATTATGTCATAATCTAAACATCATTAATAAGAGTTTT
* * *
24077366 TAATCATGTCATAATCTAAACATCTTTAATAAGGGTTTT
1 TAATTATGTCATAATCTAAACATCATTAATAAGAGTTTT
24077405 TAATTATGTCATA
1 TAATTATGTCATA
24077418 GTTCAGGACA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 29 0.66
39 15 0.34
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (39 bp):
TAATTATGTCATAATCTAAACATCATTAATAAGAGTTTT
Found at i:24083665 original size:14 final size:13
Alignment explanation
Indices: 24083639--24083664 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24083629 TATTTTAAAA
24083639 AAAATTAATTTTT
1 AAAATTAATTTTT
24083652 AAAATTAATTTTT
1 AAAATTAATTTTT
24083665 TGATATTTCT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAAATTAATTTTT
Found at i:24083812 original size:135 final size:136
Alignment explanation
Indices: 24083649--24083920 Score: 537
Period size: 135 Copynumber: 2.0 Consensus size: 136
24083639 AAAATTAATT
24083649 TTTAAAATTAATTTTTTGATATTTCTTAACGTACCTCCAAAACCCACTGAACAAGGTATTTAACA
1 TTTAAAATTAATTTTTTGATATTTCTTAACGTACCTCCAAAACCCACTGAACAAGGTATTTAACA
24083714 CCATTTGTATTGTGTTCAGTTTAAACTAATGCCACCTTCGTAAATATGGTAAAAAATCAAGTTGG
66 CCATTTGTATTGTGTTCAGTTTAAACTAATGCCACCTTCGTAAATATGGTAAAAAATCAAGTTGG
24083779 CTTAAA
131 CTTAAA
24083785 TTTAAAATTAA-TTTTTGATATTTCTTAACGTACCTCCAAAACCCACTGAACAAGGTATTTAACA
1 TTTAAAATTAATTTTTTGATATTTCTTAACGTACCTCCAAAACCCACTGAACAAGGTATTTAACA
24083849 CCATTTGTATTGTGTTCAGTTTAAACTAATGCCACCTTCGTAAATATGGTAAAAAATCAAGTTGG
66 CCATTTGTATTGTGTTCAGTTTAAACTAATGCCACCTTCGTAAATATGGTAAAAAATCAAGTTGG
24083914 CTTAAA
131 CTTAAA
24083920 T
1 T
24083921 CCACCTAAGT
Statistics
Matches: 136, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
135 125 0.92
136 11 0.08
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (136 bp):
TTTAAAATTAATTTTTTGATATTTCTTAACGTACCTCCAAAACCCACTGAACAAGGTATTTAACA
CCATTTGTATTGTGTTCAGTTTAAACTAATGCCACCTTCGTAAATATGGTAAAAAATCAAGTTGG
CTTAAA
Found at i:24084382 original size:31 final size:31
Alignment explanation
Indices: 24084342--24084414 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
24084332 ACTAACGAGA
* * **
24084342 GAGTAACTAAACTATTCAATTTTGAAAAGGT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
* * *
24084373 GAGTGACTAAAATGTTTAATTTCAAAAAGTT
1 GAGTGACTAAAATATTCAATTTCAAAAAGGT
24084404 GAGTGACTAAA
1 GAGTGACTAAA
24084415 TGAAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (31 bp):
GAGTGACTAAAATATTCAATTTCAAAAAGGT
Found at i:24085424 original size:27 final size:27
Alignment explanation
Indices: 24085365--24085470 Score: 113
Period size: 27 Copynumber: 3.8 Consensus size: 27
24085355 TTCCTTCAAC
* * *
24085365 GTTCGCCATATTGACCATTATTCCTTCAAA
1 GTTCGCCATATTTACCATTCTT--TT-AGA
* * *
24085395 GTTCGTCATATTTATCATTCTTTTGGA
1 GTTCGCCATATTTACCATTCTTTTAGA
*
24085422 GTTCACCATATTTACCATTCTTTTAGA
1 GTTCGCCATATTTACCATTCTTTTAGA
*
24085449 GTTTGCCATATTTACCATTCTT
1 GTTCGCCATATTTACCATTCTT
24085471 CCCTTTCAGG
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 44 0.69
28 2 0.03
30 18 0.28
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (27 bp):
GTTCGCCATATTTACCATTCTTTTAGA
Found at i:24085605 original size:25 final size:25
Alignment explanation
Indices: 24085529--24085605 Score: 59
Period size: 25 Copynumber: 3.0 Consensus size: 25
24085519 AAAACTTTCT
*
24085529 TTTAGAATGCACCACAAAGGCTTTCA
1 TTTAGAATGCACCACAAAGGC-TTCC
* ** *
24085555 TTTCATATAT-TTCCATAAAGTG-TTCC
1 TTT-AGA-ATGCACCACAAAG-GCTTCC
24085581 TTTAGAATGCACCACAAAGGCTTCC
1 TTTAGAATGCACCACAAAGGCTTCC
24085606 ATTTCATAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 11
0.65 0.16 0.19
Matches are distributed among these distances:
24 3 0.08
25 13 0.35
26 9 0.24
27 9 0.24
28 3 0.08
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (25 bp):
TTTAGAATGCACCACAAAGGCTTCC
Found at i:24088418 original size:23 final size:23
Alignment explanation
Indices: 24088403--24088446 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24088393 ATTGACTATG
*
24088403 TAATATCCCAAAAATTACTACTA
1 TAATACCCCAAAAATTACTACTA
*
24088426 TAATACCCCGAAAATTACTAC
1 TAATACCCCAAAAATTACTAC
24088447 AGTAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACTA
Found at i:24090800 original size:23 final size:22
Alignment explanation
Indices: 24090755--24090801 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
24090745 CAAAAATATA
*
24090755 TTAAATATATATATTTTTATTT
1 TTAAATATATATAGTTTTATTT
*
24090777 TTAAA-ATATACTAGTTTTAGTT
1 TTAAATATATA-TAGTTTTATTT
24090799 TTA
1 TTA
24090802 TTTTAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTAAATATATATAGTTTTATTT
Found at i:24090912 original size:53 final size:53
Alignment explanation
Indices: 24090836--24091013 Score: 188
Period size: 53 Copynumber: 3.6 Consensus size: 53
24090826 TTAGATTTTG
24090836 TTAC-AACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
* * *
24090888 TTACTAACAATTAATACAATTAACAATTAATAATTT--TACTAA---CAAAATG
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATA-TAATTTGATAATT
*
24090937 TTAGTAACAA-T--T--AA-T---AATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
* *
24090981 TTAGTAACAATTAATACAATTAATAATTAATAA
1 TTACTAACAATTAATACAATTAACAATTAATAA
24091014 CTTTACTAGC
Statistics
Matches: 103, Mismatches: 7, Indels: 31
0.73 0.05 0.22
Matches are distributed among these distances:
40 12 0.12
41 3 0.03
42 2 0.02
43 1 0.01
44 16 0.16
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 15 0.15
50 1 0.01
51 2 0.02
52 7 0.07
53 40 0.39
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (53 bp):
TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
Found at i:24090958 original size:93 final size:93
Alignment explanation
Indices: 24090850--24091033 Score: 323
Period size: 93 Copynumber: 2.0 Consensus size: 93
24090840 AACAATTAAT
24090850 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
*
24090915 TAATAATTTTACTAACAAAATGTTAGTA
66 TAATAACTTTACTAACAAAATGTTAGTA
* * *
24090943 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAATAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
*
24091008 TAATAACTTTACTAGCAAAATGTTAG
66 TAATAACTTTACTAACAAAATGTTAG
24091034 ATTTTACAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (93 bp):
ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
TAATAACTTTACTAACAAAATGTTAGTA
Found at i:24092432 original size:2 final size:2
Alignment explanation
Indices: 24092425--24092451 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24092415 GGACATGACA
24092425 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
24092452 TGATTCACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Done.