Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 388 of 427
Found at i:112700358 original size:21 final size:21
Alignment explanation
Indices: 112700328--112700368 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
112700318 TAAGTACTAG
112700328 TTGATCTTAG-CTTTCTTGGGA
1 TTGATCTTAGAC-TTCTTGGGA
*
112700349 TTGATGTTAGACTTCTTGGG
1 TTGATCTTAGACTTCTTGGG
112700369 TTCTTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.15, C:0.12, G:0.27, T:0.46
Consensus pattern (21 bp):
TTGATCTTAGACTTCTTGGGA
Found at i:112723275 original size:16 final size:17
Alignment explanation
Indices: 112723256--112723290 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
112723246 ACAAAAAATC
112723256 ATTTAAAAT-TAAAAAA
1 ATTTAAAATGTAAAAAA
112723272 ATTTAAAATGTAAAAAA
1 ATTTAAAATGTAAAAAA
112723289 AT
1 AT
112723291 GTAGAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATTTAAAATGTAAAAAA
Found at i:112723317 original size:19 final size:19
Alignment explanation
Indices: 112723260--112723318 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 19
112723250 AAAATCATTT
*
112723260 AAAAT-TAAAAAAAT-T-T
1 AAAATGTAAAAAAATCTAG
*
112723276 AAAATGTAAAAAAATGTAG
1 AAAATGTAAAAAAATCTAG
*
112723295 AAAATCGTAAAAATATCTA-
1 AAAAT-GTAAAAAAATCTAG
112723314 AAAAT
1 AAAAT
112723319 ATTTTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.14
17 9 0.25
18 1 0.03
19 10 0.28
20 11 0.31
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.25
Consensus pattern (19 bp):
AAAATGTAAAAAAATCTAG
Found at i:112723368 original size:11 final size:11
Alignment explanation
Indices: 112723354--112723378 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
112723344 AAATTATAAA
112723354 AATATTAAAAT
1 AATATTAAAAT
112723365 AATATTAAAAT
1 AATATTAAAAT
112723376 AAT
1 AAT
112723379 TAAAACTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:112723374 original size:19 final size:18
Alignment explanation
Indices: 112723325--112723383 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
112723315 AAATATTTTT
112723325 AAAAAT-TTAAAATATTGA
1 AAAAATATTAAAATATT-A
* *
112723343 AAAATTATAAAAATATTA
1 AAAAATATTAAAATATTA
112723361 AAATAATATTAAAATAATTA
1 AAA-AATATTAAAAT-ATTA
112723381 AAA
1 AAA
112723384 CTTGTGATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 9 0.26
19 18 0.53
20 7 0.21
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATATTAAAATATTA
Found at i:112723528 original size:19 final size:21
Alignment explanation
Indices: 112723506--112723551 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
112723496 AATGAAGTAT
*
112723506 ATATTTTTTAT-A-ATTTTTA
1 ATATTTTTTATAACATTTTAA
112723525 ATA-TTTTTATAACATTTTAA
1 ATATTTTTTATAACATTTTAA
112723545 ATATTTT
1 ATATTTT
112723552 ACATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 4 0.17
20 9 0.39
21 3 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTTTTTATAACATTTTAA
Found at i:112732917 original size:14 final size:14
Alignment explanation
Indices: 112732898--112732928 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
112732888 TGTGATTAAT
112732898 GTGTAACTAGCTTA
1 GTGTAACTAGCTTA
*
112732912 GTGTAAGTAGCTTA
1 GTGTAACTAGCTTA
112732926 GTG
1 GTG
112732929 GTTATGCAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.35
Consensus pattern (14 bp):
GTGTAACTAGCTTA
Found at i:112734046 original size:19 final size:19
Alignment explanation
Indices: 112734005--112734047 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
112733995 AATTTAGGAT
** * *
112734005 TTTATTTTAATTATCTTTG
1 TTTATTTTAATTAAATGTA
112734024 TTTATTTTAATTAAATGTA
1 TTTATTTTAATTAAATGTA
112734043 TTTAT
1 TTTAT
112734048 CTTTTTAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTATTTTAATTAAATGTA
Found at i:112740465 original size:16 final size:17
Alignment explanation
Indices: 112740439--112740474 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
112740429 TTTCTTTTTA
*
112740439 TTATTTATTATTTTCTT
1 TTATTTATTATTTTATT
112740456 TTATTT-TTATTTTATT
1 TTATTTATTATTTTATT
112740472 TTA
1 TTA
112740475 GTTAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTTATTATTTTATT
Found at i:112740473 original size:21 final size:21
Alignment explanation
Indices: 112740428--112740466 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
112740418 CAATCTTTCT
112740428 TTTTCTTTTTATTATTTATTA
1 TTTTCTTTTTATTATTTATTA
112740449 TTTTC-TTTTATT-TTTATT
1 TTTTCTTTTTATTATTTATT
112740467 TTATTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 7 0.39
21 5 0.28
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTTTATTATTTATTA
Found at i:112740669 original size:43 final size:42
Alignment explanation
Indices: 112740581--112740673 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
112740571 TATCTATGCT
* * * *
112740581 GCCAAACAGTTCTATTCCAGCCCAGAATGCCATATCTCTACA
1 GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTACA
* *
112740623 GCCAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGCA
1 GCCAAACAGTCCTATTCCAGCC-CAGAAT-CCCAAAACTCTACA
112740666 GCCAAACA
1 GCCAAACA
112740674 CTCATTTTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 21 0.49
43 17 0.40
44 5 0.12
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.19
Consensus pattern (42 bp):
GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTACA
Found at i:112741638 original size:118 final size:118
Alignment explanation
Indices: 112741430--112741660 Score: 372
Period size: 118 Copynumber: 2.0 Consensus size: 118
112741420 ATTTTTCCAT
* *
112741430 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
*
112741495 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
** *
112741548 GGTTATGAGTATGGCTCAAATCGTGGCTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
112741613 CTACTTCGCGTCAAAAGATTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTA
112741661 ACTGGAAATA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 103 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:112741789 original size:20 final size:18
Alignment explanation
Indices: 112741764--112741800 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
112741754 TATTCCTAAG
112741764 TAAAAAATAATAATAAAATT
1 TAAAAAAT-ATAA-AAAATT
112741784 TAAAAAATATAAAAAAT
1 TAAAAAATATAAAAAAT
112741801 CAAAAAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAATATAAAAAATT
Found at i:112741805 original size:17 final size:20
Alignment explanation
Indices: 112741765--112741807 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 20
112741755 ATTCCTAAGT
*
112741765 AAAAAATAATAATAAAATTT
1 AAAAAATAATAATAAAATTC
112741785 AAAAAAT-ATAA-AAAA-TC
1 AAAAAATAATAATAAAATTC
112741802 AAAAAA
1 AAAAAA
112741808 GGAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 4 0.18
20 7 0.32
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAATAATAATAAAATTC
Found at i:112742498 original size:19 final size:19
Alignment explanation
Indices: 112742457--112742499 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
112742447 AATTTAGGAT
** * *
112742457 TTTATTTTAATTATCTTTG
1 TTTATTTTAATTAAATGTA
112742476 TTTATTTTAATTAAATGTA
1 TTTATTTTAATTAAATGTA
112742495 TTTAT
1 TTTAT
112742500 CTTTTTAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTATTTTAATTAAATGTA
Found at i:112744323 original size:19 final size:19
Alignment explanation
Indices: 112744301--112744339 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
112744291 TTTTAAATAG
*
112744301 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
112744320 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
112744339 A
1 A
112744340 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:112745239 original size:15 final size:15
Alignment explanation
Indices: 112745191--112745240 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
112745181 TTTATCAAAT
112745191 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
112745206 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
112745221 TTATATTGATTGAAA
1 TTATATTGATTGAAA
112745236 TTATA
1 TTATA
112745241 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:112745248 original size:2 final size:2
Alignment explanation
Indices: 112745237--112745266 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
112745227 TGATTGAAAT
112745237 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112745267 GATCTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112745914 original size:18 final size:19
Alignment explanation
Indices: 112745891--112745931 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
112745881 AATGAAATGA
112745891 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
112745909 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
112745928 GAAA
1 GAAA
112745932 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:112745929 original size:13 final size:13
Alignment explanation
Indices: 112745879--112745918 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
112745869 TTGAGCTATT
112745879 AGAA-TGAAA-TG
1 AGAATTGAAATTG
112745890 AGAAATTG-AATTG
1 AG-AATTGAAATTG
112745903 AGAATTGAAATTG
1 AGAATTGAAATTG
112745916 AGA
1 AGA
112745919 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:112750657 original size:14 final size:14
Alignment explanation
Indices: 112750638--112750668 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
112750628 TGTGATTAAT
112750638 GTGTAAGTAGCTTA
1 GTGTAAGTAGCTTA
112750652 GTGTAAGTAGCTTA
1 GTGTAAGTAGCTTA
112750666 GTG
1 GTG
112750669 GTTAGGCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.32, T:0.35
Consensus pattern (14 bp):
GTGTAAGTAGCTTA
Found at i:112752795 original size:20 final size:20
Alignment explanation
Indices: 112752770--112752807 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
112752760 AAGTCGAGAC
112752770 TAATTTT-TATTCTTCATAAT
1 TAATTTTATATT-TTCATAAT
112752790 TAATTTTATATTTTCATA
1 TAATTTTATATTTTCATA
112752808 CAAATTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATTTTATATTTTCATAAT
Found at i:112753921 original size:15 final size:15
Alignment explanation
Indices: 112753901--112753932 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
112753891 ACGTAAATCA
112753901 TACTTTGAAACTGAT
1 TACTTTGAAACTGAT
112753916 TACTTTGAAACTGAT
1 TACTTTGAAACTGAT
112753931 TA
1 TA
112753933 TTTAAAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (15 bp):
TACTTTGAAACTGAT
Found at i:112754622 original size:15 final size:16
Alignment explanation
Indices: 112754595--112754624 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
112754585 TCTATTATTT
112754595 TTTTAACTTAAATTAA
1 TTTTAACTTAAATTAA
112754611 TTTTAA-TTAAATTA
1 TTTTAACTTAAATTA
112754625 GTTAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAACTTAAATTAA
Found at i:112763803 original size:40 final size:40
Alignment explanation
Indices: 112763748--112764049 Score: 500
Period size: 40 Copynumber: 7.6 Consensus size: 40
112763738 TATTCGAATG
* *
112763748 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
112763788 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
112763828 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
112763868 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
112763908 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
112763948 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * * *
112763988 ATATCCGAGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
112764028 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
112764050 TACTTGGGTT
Statistics
Matches: 248, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.05
40 232 0.94
41 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:112770694 original size:10 final size:10
Alignment explanation
Indices: 112770627--112770716 Score: 52
Period size: 9 Copynumber: 9.3 Consensus size: 10
112770617 ACGTCAACAA
112770627 TTAATTAATTT
1 TTAA-TAATTT
*
112770638 TTAATATTTT
1 TTAATAATTT
* *
112770648 TTGA-AACTT
1 TTAATAATTT
112770657 TTAA-AACTTT
1 TTAATAA-TTT
112770667 TGTAAT-ATTT
1 T-TAATAATTT
112770677 TT--T-ATTT
1 TTAATAATTT
112770684 TT-ATAATTT
1 TTAATAATTT
112770693 TTAAATAA-TT
1 TT-AATAATTT
112770703 TTAATAACTTT
1 TTAATAA-TTT
112770714 TTA
1 TTA
112770717 TATTTTAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
7 7 0.11
8 1 0.02
9 20 0.31
10 19 0.30
11 17 0.27
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (10 bp):
TTAATAATTT
Found at i:112770737 original size:30 final size:30
Alignment explanation
Indices: 112770681--112770737 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
112770671 ATATTTTTTA
* * *
112770681 TTTTTATAATTTTTAAATAATTTTAATAAC
1 TTTTTATAATTTTAAAAAAATATTAATAAC
112770711 TTTTTAT-ATTTTAAAAAAATAATTAAT
1 TTTTTATAATTTTAAAAAAAT-ATTAAT
112770738 TATTGACGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 11 0.48
30 12 0.52
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTTTATAATTTTAAAAAAATATTAATAAC
Found at i:112772845 original size:31 final size:31
Alignment explanation
Indices: 112772786--112772845 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
112772776 ATAAATTTAG
*
112772786 ATTTAATTCAAAAACTTTCATTTAATATATA
1 ATTTAATTCAAAAACTTTAATTTAATATATA
* * * *
112772817 ATTTAATTTATAAATTTTAATTTGATATA
1 ATTTAATTCAAAAACTTTAATTTAATATA
112772846 ATTATACACG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTTAATTCAAAAACTTTAATTTAATATATA
Found at i:112772864 original size:30 final size:31
Alignment explanation
Indices: 112772828--112772901 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 31
112772818 TTTAATTTAT
*
112772828 AAATTTTAATT-TGA-TATAAT-TATACACGTA
1 AAATTTTAATTATGATTAAAATATATACA--TA
112772858 AAATTTTAATTATGATTAAAATATATACATA
1 AAATTTTAATTATGATTAAAATATATACATA
112772889 AAATTTTAATTAT
1 AAATTTTAATTAT
112772902 AGTTCAATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
30 11 0.28
31 18 0.45
32 5 0.12
33 6 0.15
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (31 bp):
AAATTTTAATTATGATTAAAATATATACATA
Found at i:112775672 original size:2 final size:2
Alignment explanation
Indices: 112775667--112775709 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
112775657 ATAAAAACAC
112775667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112775709 A
1 A
112775710 AATTTTAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112776794 original size:21 final size:21
Alignment explanation
Indices: 112776770--112776812 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
112776760 TTGCGACGAA
112776770 GGAGATAGGGACCCCGACGGT
1 GGAGATAGGGACCCCGACGGT
112776791 GGAGATAGGGACCCCGACGGT
1 GGAGATAGGGACCCCGACGGT
112776812 G
1 G
112776813 TACTTACGAA
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:0.23, C:0.23, G:0.44, T:0.09
Consensus pattern (21 bp):
GGAGATAGGGACCCCGACGGT
Found at i:112783004 original size:17 final size:17
Alignment explanation
Indices: 112782982--112783014 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
112782972 CGAATTTGAT
*
112782982 TAATTAAAATTTCTTTC
1 TAATTAAAAATTCTTTC
112782999 TAATTAAAAATTCTTT
1 TAATTAAAAATTCTTT
112783015 GAAGAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTAAAAATTCTTTC
Found at i:112783096 original size:6 final size:6
Alignment explanation
Indices: 112783085--112783113 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
112783075 TTGCAGCAAA
112783085 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
112783114 AAACCCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:112791193 original size:3 final size:3
Alignment explanation
Indices: 112791187--112791228 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
112791177 AAACATAAGC
112791187 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
112791229 CAAGAACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:112791845 original size:11 final size:11
Alignment explanation
Indices: 112791831--112791870 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
112791821 TTTTTTTTAA
112791831 ATATTTATTTT
1 ATATTTATTTT
112791842 ATATTTATTTT
1 ATATTTATTTT
112791853 ATA--TATTTT
1 ATATTTATTTT
112791862 AGTATTTAT
1 A-TATTTAT
112791871 GTATGGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.27
10 2 0.08
11 14 0.54
12 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
ATATTTATTTT
Found at i:112793114 original size:92 final size:91
Alignment explanation
Indices: 112792892--112793144 Score: 327
Period size: 92 Copynumber: 2.8 Consensus size: 91
112792882 AACATACATT
* * *
112792892 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGT-C-AAGGCTCAACTCACTTCTCGCAATATGA
1 AAAACAGAAATTGAAAATACCTCAG--CGT--GTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
112792955 GTTGA---TTTTTTTGAAAACAGAATTTGC
62 GTTGATTTTTTTTTTGAAAACAAAAATTGA
* ** *
112792982 AAAGCATCAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
112793047 ATTTTTTTTTTGAAGGACAAAAATTGA
66 ATTTTTTTTTTGAA-AACAAAAATTGA
112793074 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
112793139 ATTTTT
66 ATTTTT
112793145 GAAACATATA
Statistics
Matches: 142, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
86 2 0.01
88 34 0.24
90 21 0.15
91 10 0.07
92 75 0.53
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (91 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTTTTGAAAACAAAAATTGA
Found at i:112793198 original size:169 final size:175
Alignment explanation
Indices: 112792892--112793557 Score: 433
Period size: 176 Copynumber: 3.9 Consensus size: 175
112792882 AACATACATT
* *
112792892 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGTCAAGGCTCAACTCACTTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAG-ACGT-AGTCAAGGCTCAACTCACCTCTCGCAATATGAGT
* * **
112792957 TGATTTTTTTGAAAACAGAATTTGCAAAGCATCAATTGAAAATACCTCAGCGTGTCTTGAGGCTC
64 TGA-TTTTTTGAAAAC--AATAT-CAAA-CATAAATTGAAAATACCTCAGCGTGTCCCGAGGCTC
112793022 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAGGACAAAAATTGA
124 AACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAGGACAAAAATTGA
*
112793074 AAAACAGAAATTGAAAATACCTCAG-CGT-GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGACGTAGT-C-AAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
112793137 TGA-TTTTTG-AAAC-ATAT-AAA-A-AAATTGACAATATCTCGGCGTGTCCCGAGGCTCAACTC
64 TGATTTTTTGAAAACAATATCAAACATAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTC
*
112793196 ACCTCTCGCAATATGAGTTGA------TTTT----GAC---AAGT-A
129 ACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAGGACAAAAATTGA
* ** * * *
112793229 GAAATTGAAA-T-----TACCTCAG-CAT-GTTCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 AAAACAGAAATTGAAAATACCTCAGACGTAG-TC-AAGGCTCAACTCACCTCTCGCAATATGAGT
* * ** * * * *
112793286 TGA-TTTTTGAAAACAGAATTTGCAAAACAGATTTTGAAACTACCTCGGCATGTGACCTGAGGCT
64 TGATTTTTTGAAAAC--AATAT-C-AAACATAAATTGAAAATACCTCAGC--GTGTCCCGAGGCT
* * *
112793350 CAACTCACCTCTCGTAATATGAGTTGA-----TTTTTGAA-AAGCATAAATTGAA
123 CAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAGGA-CAAAAATTG-A
** * * *
112793399 AAAACATTAATTGAAAATACCTTAG-CAT-GCCTCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGACGTAG--TCAAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * **
112793462 TGATTTTGATGAACAGA-AAT-TGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGC
64 TGATTTT-TTGAA-A-ACAATAT--CAAACATAAATTGAAAATACCTCAGC--GTGTCCCGAGGC
*
112793525 TCAACTCACCTCTCGCGATATGAGTTGATTTTT
122 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
112793558 GACAAACAGA
Statistics
Matches: 396, Mismatches: 47, Indels: 83
0.75 0.09 0.16
Matches are distributed among these distances:
149 51 0.13
150 5 0.01
153 3 0.01
154 1 0.00
155 8 0.02
156 6 0.02
157 1 0.00
158 14 0.04
159 3 0.01
160 37 0.09
161 4 0.01
163 4 0.01
164 1 0.00
165 1 0.00
168 3 0.01
169 53 0.13
170 7 0.02
171 1 0.00
172 3 0.01
174 3 0.01
176 102 0.26
177 12 0.03
178 12 0.03
179 2 0.01
180 35 0.09
182 24 0.06
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (175 bp):
AAAACAGAAATTGAAAATACCTCAGACGTAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGAAAACAATATCAAACATAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTTTTTGAAGGACAAAAATTGA
Found at i:112793275 original size:72 final size:73
Alignment explanation
Indices: 112793079--112793292 Score: 281
Period size: 72 Copynumber: 2.9 Consensus size: 73
112793069 ATTGAAAAAC
112793079 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
112793144 TGAAACATATAA
64 TG-AACATAT-A
* * * *
112793156 AAAAATTGACAATATCTCGGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGA-AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
112793221 G-ACA-AGT-
65 GAACATA-TA
* * *
112793228 AGAAATTGAAATTACCTCAGCATGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
112793293 TGAAAACAGA
Statistics
Matches: 123, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
71 2 0.02
72 55 0.45
73 1 0.01
74 4 0.03
76 6 0.05
77 55 0.45
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (73 bp):
AGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
AACATATA
Found at i:112793319 original size:13 final size:13
Alignment explanation
Indices: 112793291--112793324 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
112793281 TGAGCTGATT
112793291 TTTGAAAACAGAA
1 TTTGAAAACAGAA
*
112793304 TTTGCAAAACAGAT
1 TTTG-AAAACAGAA
112793318 TTTGAAA
1 TTTGAAA
112793325 CTACCTCGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:112793380 original size:88 final size:87
Alignment explanation
Indices: 112793233--112793575 Score: 403
Period size: 88 Copynumber: 3.9 Consensus size: 87
112793223 CAAGTAGAAA
* * *
112793233 TTGAAATTACCTCAGCATGT-TCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA-
1 TTGAAAATACCTCAGCATGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
*
112793296 AAACAGAATTTGCAAAACAGATT
66 AAACAGAAATTG-AAAACAGATT
* * *
112793319 TTGAAACTACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCAGCATGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* * *
112793384 -AAAGCATAAATTGAAAAAACATT
65 CAAA-CAGAAATTGAAAACAGATT
*
112793407 AATTGAAAATACCTTAGCA--TGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 --TTGAAAATACCTCAGCATGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
** **
112793469 GATGAACAGAAATTGAAAAACAGAAA
63 GACAAACAGAAATTG-AAAACAGATT
* *
112793495 TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTG
1 TTGAAAATACCTCAGCATGT--GCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
112793559 ACAAACAGAAATTGAAA
64 ACAAACAGAAATTGAAA
112793576 TTACCTCAAT
Statistics
Matches: 220, Mismatches: 24, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
86 33 0.15
87 17 0.08
88 129 0.59
89 24 0.11
90 17 0.08
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (87 bp):
TTGAAAATACCTCAGCATGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
AAACAGAAATTGAAAACAGATT
Found at i:112793468 original size:176 final size:176
Alignment explanation
Indices: 112793231--112793575 Score: 491
Period size: 176 Copynumber: 2.0 Consensus size: 176
112793221 GACAAGTAGA
* *
112793231 AATTGAAATTACCTCAGCATGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGA
1 AATTGAAAATACCTCAGCATGCTCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTGA
* * ** ** *
112793296 -AAACAGAATTTGCAAAACAGATTTTGAAACTACCTCGGCATGTGA-CCTGAGGCTCAACTCACC
65 TAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACC
* *
112793359 TCTCGTAATATGAGTTGATTTTTGA-AAAGCATAAATTGAAAAAACATT
129 TCTCGCAATATGAGTTGATTTTTGACAAA-CAGAAATTGAAAAAACATT
* *
112793407 AATTGAAAATACCTTAGCATGC-CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AATTGAAAATACCTCAGCATGCTCT-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGA
*
112793471 TGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCT
65 TAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCT
*
112793536 CTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
130 CTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
112793576 TTACCTCAAT
Statistics
Matches: 150, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
175 8 0.05
176 137 0.91
177 5 0.03
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (176 bp):
AATTGAAAATACCTCAGCATGCTCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAT
AAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAAACATT
Found at i:112793484 original size:14 final size:14
Alignment explanation
Indices: 112793473--112793501 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
112793463 GATTTTGATG
112793473 AACAGAAATTGAAA
1 AACAGAAATTGAAA
112793487 AACAGAAATTGAAA
1 AACAGAAATTGAAA
112793501 A
1 A
112793502 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:112793608 original size:73 final size:74
Alignment explanation
Indices: 112793481--112793959 Score: 319
Period size: 73 Copynumber: 6.2 Consensus size: 74
112793471 TGAACAGAAA
*
112793481 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCGATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCA-CATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
112793546 GAGTTGATTT
65 GAGTTGATTT
* ** *
112793556 TTGACAAACAGAAATTGAAATTACCTCA-ATGTG-TCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCACATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATAT
112793619 GAGTTGATTTTTTTT
65 GAGTTGA-----TTT
* * ** * * * *
112793634 TTGAAGAGCAGAAATTGGAAAGAAGAAATCGAAAATACCTCAGCGTGCCCTCAGGCTCAACTCAC
1 TTGAAAAACAGAAATT-G-AA-AAGACCTC------ACAT--GTGAG-CC-GAGGCTCAACTCAC
112793699 CTCTCGCAATATGAGTTGA-TT
53 CTCTCGCAATATGAGTTGATTT
** * *
112793720 TTGATGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCGATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCA-CATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
112793785 GAGTTGATTT
65 GAGTTGATTT
* * * ** * * ** *
112793795 TTGACAAATAGAACTTGAAATTACCTCA-GTGTG-TCCTGAGGCTCAACTCATTTCTCGCAACAT
1 TTGAAAAACAGAAATTGAAAAGACCTCACATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATAT
*
112793858 GAGTTGGTTTT
65 GAGTT-GATTT
* * *
112793869 TTGAAAAACAGAAGCAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTTTC
1 TTG---AA-A-AA-CAGAAATTGAAAAGACCTCA-CATGTGAGCC-GAGGCTCAACTCACCTCTC
*
112793931 GCAATATGAGTTGA-AT
58 GCAATATGAGTTGATTT
*
112793947 TTGAAAAGCAGAA
1 TTGAAAAACAGAA
112793960 GTAAAACATT
Statistics
Matches: 320, Mismatches: 52, Indels: 67
0.73 0.12 0.15
Matches are distributed among these distances:
72 9 0.03
73 68 0.21
74 38 0.12
75 53 0.17
76 3 0.01
77 2 0.01
78 23 0.07
79 4 0.01
80 52 0.16
81 4 0.01
83 6 0.02
84 2 0.01
85 1 0.00
86 16 0.05
87 1 0.00
88 1 0.00
90 2 0.01
92 35 0.11
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCACATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTT
Found at i:112793770 original size:239 final size:227
Alignment explanation
Indices: 112793487--112793950 Score: 694
Period size: 239 Copynumber: 2.0 Consensus size: 227
112793477 GAAATTGAAA
*
112793487 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTG
1 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCGATATGAGTTG
*
112793552 ATTTTTGACAAACAGAAATTGAAATTACCTCAATGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
66 ATTTTTGACAAACAGAAATTGAAATTACCTCAATGTGTCCTGAGGCTCAACTCACCTCTCGCAAC
*
112793617 ATGAGTTGATTTTTTTTTTGAAGAGCAGAAATTGGAAAGAAGAAATCGAAAATACCTCAGCGTGC
131 ATGAGTTG----GTTTTTTGAA-A--A-AAA---G-AAGAAGAAATCGAAAATACCTCAGCGTGC
*
112793682 CCTCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATG
184 CCTCAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTGATG
112793726 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCGATATGAGTTG
1 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCGATATGAGTTG
* * * **
112793791 ATTTTTGACAAATAGAACTTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGCAAC
66 ATTTTTGACAAACAGAAATTGAAATTACCTCAATGTGTCCTGAGGCTCAACTCACCTCTCGCAAC
* * * *
112793856 ATGAGTTGGTTTTTTGAAAAACAGAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAA
131 ATGAGTTGGTTTTTTGAAAAAAAGAAGAAGAAATCGAAAATACCTCAGCGTGCCCTCAGGCTCAA
*
112793921 CTCACCTTTCGCAATATGAGTTGAATTTGA
196 CTCACCTCTCGCAATATGAGTTGAATTTGA
112793951 AAAGCAGAAG
Statistics
Matches: 211, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
227 66 0.31
228 1 0.00
231 2 0.01
232 1 0.00
234 1 0.00
235 9 0.04
239 131 0.62
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (227 bp):
AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAAGCTCAACTCACCTCTCGCGATATGAGTTG
ATTTTTGACAAACAGAAATTGAAATTACCTCAATGTGTCCTGAGGCTCAACTCACCTCTCGCAAC
ATGAGTTGGTTTTTTGAAAAAAAGAAGAAGAAATCGAAAATACCTCAGCGTGCCCTCAGGCTCAA
CTCACCTCTCGCAATATGAGTTGAATTTGATG
Found at i:112798535 original size:11 final size:11
Alignment explanation
Indices: 112798519--112798553 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
112798509 CCGGATTCCC
112798519 CTCCCTTCTCT
1 CTCCCTTCTCT
112798530 CTCCCTTCTCT
1 CTCCCTTCTCT
112798541 CTTCCC-TCTCT
1 C-TCCCTTCTCT
112798552 CT
1 CT
112798554 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:112799042 original size:3 final size:3
Alignment explanation
Indices: 112799034--112799085 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
112799024 TGCATTTCAA
*
112799034 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
112799082 TAT T
1 TAT T
112799086 GAAATACATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:112799195 original size:3 final size:3
Alignment explanation
Indices: 112799187--112799243 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
112799177 TGTGTTTCAA
112799187 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
112799235 TAT TAT TAT
1 TAT TAT TAT
112799244 ATATCCTTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:112799517 original size:33 final size:30
Alignment explanation
Indices: 112799459--112799531 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
112799449 TAATATTATG
*
112799459 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
112799489 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
112799522 TATATATTTT
1 TATATATTTT
112799532 CTTAGTACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:112814992 original size:163 final size:163
Alignment explanation
Indices: 112814722--112815581 Score: 1186
Period size: 163 Copynumber: 5.3 Consensus size: 163
112814712 TTTACCAAAG
*
112814722 AATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
*
112814787 ATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
66 GTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
112814852 GTTGAGGTAATTTTAATTTCTGTTCATCAAAAA
131 GTTGAGGTAATTTTAATTTCTGTTCATCAAAAA
* * *
112814885 AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGCTCAAGCGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
* * * * *
112814950 GTTTTTCGATTTCTGTTCGTCAAAATCAACTTATATTGCGAGAGGTGAGTTAAGTCTCGGGACAC
66 GTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
112815015 GTTGAGGTAATTTTAATTTCTGTTCATAAAAAA
131 GTTGAGGTAATTTTAATTTCTGTTCATCAAAAA
112815048 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
*
112815113 GTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACAC
66 GTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
112815178 GTTGAGGTAATTTTAATTTCTGTTCATCAAAAAAAA
131 GTTGAGGTAATTTTAATTTCTGTTCATC---AAAAA
*
112815214 AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
* *
112815279 GTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACAC
66 GTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
112815344 GTTGAGGTAATTTCAATTTCTGTT-TTC--AAA
131 GTTGAGGTAATTTTAATTTCTGTTCATCAAAAA
* ** * *
112815374 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTATTTTCAATTTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCTCACGCGCTGAGGTATTTTCAATTTC
* * *
112815436 TG-TTTTCAA-----------AAAAATCAACTTATATTGCTAGAGGTGAGTTGAGCCTC-GGTTC
65 TGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
* * *
112815488 ACATGCTGAGGT-ATTTTCAATTTCTG-TCTTTCAAAAA
127 ACACGTTGAGGTAATTTT-AATTTCTGTTC-ATCAAAAA
* * * * * *
112815525 AATCAACTCATATTGCGAGAGGTGAATTGAGCTTCAGATCACACACTGTGGTATTTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTT
112815582 TTCAATTTAT
Statistics
Matches: 634, Mismatches: 48, Indels: 40
0.88 0.07 0.06
Matches are distributed among these distances:
145 1 0.00
146 35 0.06
147 5 0.01
148 18 0.03
149 3 0.00
150 2 0.00
151 33 0.05
153 14 0.02
157 7 0.01
158 24 0.04
160 34 0.05
161 2 0.00
163 300 0.47
165 2 0.00
166 154 0.24
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (163 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
GTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GTTGAGGTAATTTTAATTTCTGTTCATCAAAAA
Found at i:112815110 original size:77 final size:76
Alignment explanation
Indices: 112814971--112815581 Score: 492
Period size: 77 Copynumber: 7.8 Consensus size: 76
112814961 TCTGTTCGTC
* * * ** *
112814971 AAAATCAACTTATATTGCGAGAGGTGAGTTAAGTCTC-GGGACACGTTGAGGTAATTTT-AATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACACGCTGAGGT-ATTTTCAATTT
*
112815034 CTGTTCATAAAA
65 CTGTTCATCAAA
*
112815046 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-TCACACGCTGAGGTATTTTCAATTT
***
112815111 CTGTTTTTCAATTTCTGTTCGTC
65 CTG---TTC-A-------TCAAA
* * *
112815134 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAG-GACACGTTGAGGTAATTTT-AATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACACGCTGAGGT-ATTTTCAATTT
112815197 CTGTTCATCAAAAAA
65 CTGTTCATC---AAA
* *
112815212 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGCTCACGCGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-TCACACGCTGAGGTATTTTCAATTT
***
112815277 CTGTTTTTCAATTTCTGTTCGTC
65 CTG---TTC-A-------TCAAA
* * *
112815300 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTCACACGCTGAGGTATTTTCAATTT
*
112815363 CTGTT-TTC--A
65 CTGTTCATCAAA
* ** *
112815372 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTCACACGCTGAGGTATTTTCAATTT
*
112815435 CTGTT-TTCAAA
65 CTGTTCATCAAA
* * * *
112815446 AAAATCAACTTATATTGCTAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-TCACACGCTGAGGTATTTTCAATTT
*
112815511 CTG-TCTTTCAAA
65 CTGTTC-ATCAAA
* * * *
112815523 AAAATCAACTCATATTGCGAGAGGTGAATTGAGCTTCAGATCACACACTGTGGTATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-TCACACGCTGAGGTATTTT
112815582 TTCAATTTAT
Statistics
Matches: 441, Mismatches: 55, Indels: 78
0.77 0.10 0.14
Matches are distributed among these distances:
72 66 0.15
73 1 0.00
74 35 0.08
75 37 0.08
76 30 0.07
77 74 0.17
78 37 0.08
79 5 0.01
80 21 0.05
81 1 0.00
82 1 0.00
83 8 0.02
84 1 0.00
86 41 0.09
87 5 0.01
88 74 0.17
89 2 0.00
91 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACACGCTGAGGTATTTTCAATTTC
TGTTCATCAAA
Found at i:112815120 original size:14 final size:14
Alignment explanation
Indices: 112815101--112815129 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
112815091 CGCTGAGGTA
112815101 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
112815115 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
112815129 T
1 T
112815130 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:112815286 original size:14 final size:14
Alignment explanation
Indices: 112815267--112815295 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
112815257 CGCTGAGGTA
112815267 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
112815281 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
112815295 T
1 T
112815296 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:112815400 original size:72 final size:73
Alignment explanation
Indices: 112815281--112815556 Score: 353
Period size: 72 Copynumber: 3.7 Consensus size: 73
112815271 CAATTTCTGT
* *
112815281 TTTTCAATTTCTGTTCGTC--AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
112815344 GTTGAGGTA
65 GTTGAGGTA
* * **
112815353 ATTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
112815417 TTGAGGTA
66 TTGAGGTA
* * *
112815425 TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCTAGAGGTGAGTTGAGCCTC-GGTTCA
1 TTTTCAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---A
* *
112815489 CATGCTGAGGTA
62 CACGTTGAGGTA
*
112815501 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGC
1 TTTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
112815557 TTCAGATCAC
Statistics
Matches: 179, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
71 2 0.01
72 80 0.45
73 1 0.01
74 33 0.18
76 25 0.14
77 38 0.21
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
TTGAGGTA
Found at i:112816383 original size:35 final size:35
Alignment explanation
Indices: 112816344--112816412 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
112816334 ACTTGCCTCT
112816344 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
112816379 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
112816413 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:112816923 original size:11 final size:11
Alignment explanation
Indices: 112816907--112816941 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
112816897 CGGATTCCCC
112816907 TCCCTTCTCTT
1 TCCCTTCTCTT
112816918 TCCCTTCTCTCT
1 TCCCTTCTCT-T
112816930 TCCCTCTCTCTT
1 TCCCT-TCTCTT
112816942 CTTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.45
12 7 0.32
13 5 0.23
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (11 bp):
TCCCTTCTCTT
Found at i:112817428 original size:3 final size:3
Alignment explanation
Indices: 112817420--112817474 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
112817410 TGCATTTCAA
112817420 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
112817468 TGT TAT T
1 TAT TAT T
112817475 GAAATACATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:112817584 original size:3 final size:3
Alignment explanation
Indices: 112817576--112817638 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
112817566 TGTGTTTCAA
112817576 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
112817624 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
112817639 ATATCCTTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:112824840 original size:35 final size:35
Alignment explanation
Indices: 112824794--112824863 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
112824784 TCTAACGGGG
112824794 AGAATGTTTTAGAAAACATATGGAACGGTGTGCGC
1 AGAATGTTTTAGAAAACATATGGAACGGTGTGCGC
112824829 AGAATGTTTTAGAAAACATATGGAACGGTGTGCGC
1 AGAATGTTTTAGAAAACATATGGAACGGTGTGCGC
112824864 TCTACTTTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (35 bp):
AGAATGTTTTAGAAAACATATGGAACGGTGTGCGC
Found at i:112827517 original size:2 final size:2
Alignment explanation
Indices: 112827510--112827534 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
112827500 ATAGAGTTAA
112827510 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
112827535 CATAAGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112828208 original size:3 final size:3
Alignment explanation
Indices: 112828202--112828299 Score: 162
Period size: 3 Copynumber: 33.0 Consensus size: 3
112828192 AAACATAAGC
112828202 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
112828250 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GAA TAA GAA -AA TAA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
112828297 TAA
1 TAA
112828300 ACAAAAAAGG
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
2 2 0.02
3 87 0.98
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:112829532 original size:13 final size:14
Alignment explanation
Indices: 112829516--112829551 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
112829506 CAATCTCATA
112829516 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
112829529 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
112829542 TCTC-ATTTCA
1 TCTCAATTTCA
112829552 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:112829541 original size:18 final size:19
Alignment explanation
Indices: 112829503--112829543 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
112829493 TGGTTCATGT
112829503 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
112829522 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
112829540 TTTC
1 TTTC
112829544 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:112829743 original size:21 final size:21
Alignment explanation
Indices: 112829719--112829800 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
112829709 GACACATAAA
* *
112829719 GTGCCTAAAATGACATACGAG
1 GTGCCTAAAACGACACACGAG
* *
112829740 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* *
112829761 GTGCCTAATACGATACACGAG
1 GTGCCTAAAACGACACACGAG
112829782 GTGCCTGAAATACGACACA
1 GTGCCT-AAA-ACGACACA
112829801 TAAAGTGCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 42 0.82
22 2 0.04
23 7 0.14
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:112829765 original size:42 final size:43
Alignment explanation
Indices: 112829705--112829810 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
112829695 CCTGATCAGT
* * *
112829705 ATACGACACATAAAGTGCCTAAAATGACATACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
* * * *
112829747 ATACGACACACGAGGTGCCTAATACGATACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
*
112829791 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
112829811 GATCGATAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 35 0.67
44 17 0.33
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (43 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:112829793 original size:23 final size:22
Alignment explanation
Indices: 112829730--112829800 Score: 101
Period size: 21 Copynumber: 3.3 Consensus size: 22
112829720 TGCCTAAAAT
*
112829730 GACATACGAGGTGCCTG-ATAC
1 GACACACGAGGTGCCTGAATAC
112829751 GACACACGAGGTGCCT-AATAC
1 GACACACGAGGTGCCTGAATAC
*
112829772 GATACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG-AATAC
112829795 GACACA
1 GACACA
112829801 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 34 0.77
23 10 0.23
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.15
Consensus pattern (22 bp):
GACACACGAGGTGCCTGAATAC
Found at i:112830208 original size:15 final size:15
Alignment explanation
Indices: 112830183--112830251 Score: 111
Period size: 15 Copynumber: 4.5 Consensus size: 15
112830173 TCATATATAT
112830183 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
112830199 TATAAATTCAATCAA
1 TATAAATTCAATCAA
112830214 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
112830229 AATAATTTCAATCAA
1 TATAAATTCAATCAA
112830244 TATAAATT
1 TATAAATT
112830252 TAATAAAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
15 45 0.92
16 4 0.08
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:112830223 original size:30 final size:30
Alignment explanation
Indices: 112830183--112830259 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
112830173 TCATATATAT
*
112830183 TATATAATTCAATCAATATAAATTCAATCAA
1 TATA-AATTCAATCAAAATAAATTCAATCAA
*
112830214 TATAAATTCAATCAAAATAATTTCAATCAA
1 TATAAATTCAATCAAAATAAATTCAATCAA
*
112830244 TATAAATTTAAT-AAAA
1 TATAAATTCAATCAAAA
112830260 CAGATATTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 4 0.09
30 35 0.81
31 4 0.09
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (30 bp):
TATAAATTCAATCAAAATAAATTCAATCAA
Found at i:112830429 original size:2 final size:2
Alignment explanation
Indices: 112830422--112830477 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
112830412 ACATCTCATT
112830422 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
112830464 CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA
112830478 TATATATATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:112830482 original size:2 final size:2
Alignment explanation
Indices: 112830477--112830510 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
112830467 ACACACACAC
*
112830477 AT AT AT AT AT AT AT AT AT AT AT TT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112830511 ATTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112831891 original size:25 final size:27
Alignment explanation
Indices: 112831854--112831907 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
112831844 TCAAACATGC
112831854 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
112831880 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
112831906 AT
1 AT
112831908 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:112831915 original size:26 final size:27
Alignment explanation
Indices: 112831871--112831946 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
112831861 TCAATTTAAC
* * *
112831871 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
112831897 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
112831925 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
112831947 AACTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:112833242 original size:26 final size:26
Alignment explanation
Indices: 112833206--112833315 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
112833196 CATAAAATTC
112833206 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
112833232 TTATCATGAAACATTTGCCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112833258 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
112833284 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112833310 TTATCA
1 TTATCA
112833316 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112834074 original size:25 final size:26
Alignment explanation
Indices: 112834035--112834084 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
112834025 GTAATTTTCT
* *
112834035 TTTTTTTTTAAATTTTTGT-TTTATA
1 TTTTTTTATAAATTTTAGTATTTATA
*
112834060 TTTTTTTATATATTTTAGTATTTAT
1 TTTTTTTATAAATTTTAGTATTTAT
112834085 GTGTGGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTTTTTATAAATTTTAGTATTTATA
Found at i:112838441 original size:21 final size:22
Alignment explanation
Indices: 112838410--112838450 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
112838400 TATTAGATAT
112838410 TAAATAGATATTTATTAATTTA
1 TAAATAGATATTTATTAATTTA
112838432 TAAA-AGATATTTATTAATT
1 TAAATAGATATTTATTAATT
112838451 AAATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
TAAATAGATATTTATTAATTTA
Found at i:112838461 original size:17 final size:19
Alignment explanation
Indices: 112838408--112838464 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 19
112838398 TGTATTAGAT
112838408 ATTAAATAGATATTTATTA
1 ATTAAATAGATATTTATTA
*
112838427 ATTTATAAAAGATATTTATTA
1 A-TTA-AATAGATATTTATTA
112838448 ATTAAATA-AT-TTTATTA
1 ATTAAATAGATATTTATTA
112838465 TAAGATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 7 0.21
18 2 0.06
19 4 0.12
20 6 0.18
21 15 0.44
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
ATTAAATAGATATTTATTA
Found at i:112840568 original size:23 final size:24
Alignment explanation
Indices: 112840535--112840585 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
112840525 CCGAAATACA
*
112840535 GCTCTTCGTGAGCTTCCCAATAG-
1 GCTCTTCGTGAGCCTCCCAATAGT
* *
112840558 GCTCTTTGTGAGCCTCCCGATAGT
1 GCTCTTCGTGAGCCTCCCAATAGT
112840582 GCTC
1 GCTC
112840586 GCTTGAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.14, C:0.31, G:0.24, T:0.31
Consensus pattern (24 bp):
GCTCTTCGTGAGCCTCCCAATAGT
Found at i:112841093 original size:46 final size:46
Alignment explanation
Indices: 112841036--112841217 Score: 242
Period size: 46 Copynumber: 4.0 Consensus size: 46
112841026 AGTGTGCTCT
* * *
112841036 CTGAAATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
112841082 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
112841128 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
112841174 ATGATA-GAAAACGAGTAAGACCA-GAGTTGAAAGATACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATG-GTTGAAAGATACCATGGCA
112841218 TCATGTCAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.02
46 121 0.98
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:112842753 original size:8 final size:8
Alignment explanation
Indices: 112842722--112842756 Score: 56
Period size: 7 Copynumber: 4.6 Consensus size: 8
112842712 AATACACTAA
112842722 AAATATAT
1 AAATATAT
112842730 AAA-ATAT
1 AAATATAT
112842737 AAA-ATAT
1 AAATATAT
112842744 AAATATAT
1 AAATATAT
112842752 AAATA
1 AAATA
112842757 AAAGAAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.54
8 12 0.46
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AAATATAT
Found at i:112843089 original size:2 final size:2
Alignment explanation
Indices: 112843084--112843128 Score: 81
Period size: 2 Copynumber: 22.0 Consensus size: 2
112843074 TGTATATAAC
112843084 AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112843127 AT
1 AT
112843129 TTTTTAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112851475 original size:2 final size:2
Alignment explanation
Indices: 112851468--112851494 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
112851458 AGAATTTCTT
112851468 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
112851495 TAAATATATA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:112851503 original size:2 final size:2
Alignment explanation
Indices: 112851498--112851531 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
112851488 ACACACATAA
112851498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112851532 CCTAATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112854813 original size:19 final size:20
Alignment explanation
Indices: 112854789--112854826 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
112854779 AAATTAAACT
112854789 TTAATTAATT-ACAATTAAC
1 TTAATTAATTAACAATTAAC
112854808 TTAATTAATTAACAATTAA
1 TTAATTAATTAACAATTAA
112854827 TAATGTTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAATTAACAATTAAC
Found at i:112855769 original size:47 final size:47
Alignment explanation
Indices: 112855660--112855789 Score: 154
Period size: 47 Copynumber: 2.7 Consensus size: 47
112855650 ATTTAAAACC
** * *
112855660 ATCATTGTCAAGCCACTCAGGATGATAAAATATGCAAACAGTGAAAGCT
1 ATCATTGTCGGGCCACTCAGGATGAT-AGA-ATGTAAACAGTGAAAGCT
* *
112855709 ATCATTGTCGGGCCACTCGGGATGATAGAATGTAAATAGTGAAAG-T
1 ATCATTGTCGGGCCACTCAGGATGATAGAATGTAAACAGTGAAAGCT
* *
112855755 CATCATTGTTGGGCCACCCAGGATGATAGAATGTA
1 -ATCATTGTCGGGCCACTCAGGATGATAGAATGTA
112855790 CAAGTTCTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
46 1 0.01
47 45 0.63
48 2 0.03
49 23 0.32
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (47 bp):
ATCATTGTCGGGCCACTCAGGATGATAGAATGTAAACAGTGAAAGCT
Found at i:112856342 original size:43 final size:43
Alignment explanation
Indices: 112856294--112856379 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
112856284 ATTTTCCAAG
*
112856294 CCTTGGTCAACCATAATTCCTCACACACTTATACAACATCAAA
1 CCTTGGTCAACCATAATCCCTCACACACTTATACAACATCAAA
**
112856337 CCTTGGTCAACGTTAATCCCTCACACACTTATACAACATCAAA
1 CCTTGGTCAACCATAATCCCTCACACACTTATACAACATCAAA
112856380 GGCATAGAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.33, G:0.06, T:0.26
Consensus pattern (43 bp):
CCTTGGTCAACCATAATCCCTCACACACTTATACAACATCAAA
Found at i:112857083 original size:6 final size:6
Alignment explanation
Indices: 112857072--112857113 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
112857062 ATAAAGACAA
112857072 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
112857114 TTCATGCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:112859070 original size:16 final size:15
Alignment explanation
Indices: 112859049--112859096 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
112859039 GATGTGAATA
112859049 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
112859065 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
112859080 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
112859096 A
1 A
112859097 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:112859072 original size:24 final size:24
Alignment explanation
Indices: 112859045--112859100 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
112859035 TAATGATGTG
*
112859045 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
112859069 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
112859093 AATAATAA
1 AATAATAA
112859101 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:112859079 original size:8 final size:8
Alignment explanation
Indices: 112859045--112859096 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
112859035 TAATGATGTG
*
112859045 AATAATAA
1 AATATTAA
112859053 AATATATAA
1 AATAT-TAA
112859062 AATA-TAA
1 AATATTAA
112859069 AATATTAA
1 AATATTAA
*
112859077 AATATCAA
1 AATATTAA
*
112859085 AATATTAG
1 AATATTAA
112859093 AATA
1 AATA
112859097 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:112859199 original size:22 final size:24
Alignment explanation
Indices: 112859147--112859200 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
112859137 AAAAAAAATG
112859147 TACATAATATAGTGTTAAAAATACA
1 TACATAATATAG-GTTAAAAATACA
* *
112859172 TACATAATATA-GTT-AAGATATA
1 TACATAATATAGGTTAAAAATACA
112859194 TACATAA
1 TACATAA
112859201 GATAACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 13 0.48
23 3 0.11
25 11 0.41
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (24 bp):
TACATAATATAGGTTAAAAATACA
Found at i:112859257 original size:25 final size:25
Alignment explanation
Indices: 112859216--112859277 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
112859206 CATGTAAAAA
* *
112859216 AAAATATATATAAATAATATAATAT
1 AAAAGATATATAAATAAAATAATAT
* * *
112859241 TAAAGATATATACATAAAATAGTAT
1 AAAAGATATATAAATAAAATAATAT
*
112859266 AAAATATATATA
1 AAAAGATATATA
112859278 TATACGTAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (25 bp):
AAAAGATATATAAATAAAATAATAT
Found at i:112859354 original size:23 final size:25
Alignment explanation
Indices: 112859311--112859356 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
112859301 TATACCGAAT
112859311 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
112859336 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
112859357 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:112859947 original size:20 final size:21
Alignment explanation
Indices: 112859919--112859975 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
112859909 AGGGTTTCTT
112859919 GGTTTTTTTTGGGGGGGGTTA
1 GGTTTTTTTTGGGGGGGGTTA
***
112859940 GGTTTTTTTT-TTTGGGGTTA
1 GGTTTTTTTTGGGGGGGGTTA
112859960 GGTTTTTTTTGGGGGG
1 GGTTTTTTTTGGGGGG
112859976 CCTAATGGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.04, C:0.00, G:0.42, T:0.54
Consensus pattern (21 bp):
GGTTTTTTTTGGGGGGGGTTA
Found at i:112860696 original size:14 final size:14
Alignment explanation
Indices: 112860677--112860724 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
112860667 GTCGATTTTT
* *
112860677 TTGAAAGGCAAAAA
1 TTGAAAAGCAGAAA
*
112860691 TTGAAAAACAGAAA
1 TTGAAAAGCAGAAA
112860705 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
112860719 TTGAAA
1 TTGAAA
112860725 TTAACTCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.58, C:0.06, G:0.19, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:112860826 original size:74 final size:74
Alignment explanation
Indices: 112860705--112861188 Score: 280
Period size: 74 Copynumber: 6.3 Consensus size: 74
112860695 AAAACAGAAA
* * * * * *
112860705 TTGAAAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGA
1 TTGAAAA-CAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
112860770 GTTG-ATTTT
65 GTTGAATTTT
* * **
112860779 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
**
112860844 GTTGCTTTTTT
65 GTTG-AATTTT
* * * * *
112860855 TTTACAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
112860920 TTGAATTTTTT
66 TTGAA--TTTT
* ** *** ** * * * *
112860931 TTGAAAA-ATATAAATTGAAA--AGCAGAAATTGAAATT-A-CCTAAACCTGCCTTGAGGCTCAA
1 TTGAAAACA-A-AAATTGAAATTACCTCAGCGTG-TCTTGAGGCTCAA-CT--C---A-CCTC-T
* * * * *
112860991 CTCACCTCTCGCAATATGAGTTGATTT
55 CGCA-ATAT-G-AGT-TGA-AT--TTT
* * **
112861018 TTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 T-TGAAA-ACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
112861083 AGTTTATTTTT
64 AGTTGAATTTT
* * *
112861094 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
112861159 TTGAACTTTT
66 TTGAA-TTTT
112861169 TTGAAAA-ATATAAATTGAAA
1 TTGAAAACA-A-AAATTGAAA
112861189 AGCAGAAATT
Statistics
Matches: 305, Mismatches: 72, Indels: 64
0.69 0.16 0.15
Matches are distributed among these distances:
74 118 0.39
75 79 0.26
76 31 0.10
77 10 0.03
78 2 0.01
79 2 0.01
80 3 0.01
81 4 0.01
82 5 0.02
83 5 0.02
84 3 0.01
85 4 0.01
86 3 0.01
87 4 0.01
88 15 0.05
89 4 0.01
90 9 0.03
91 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (74 bp):
TTGAAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGAATTTT
Found at i:112860898 original size:75 final size:74
Alignment explanation
Indices: 112860709--112860950 Score: 256
Period size: 75 Copynumber: 3.2 Consensus size: 74
112860699 CAGAAATTGA
* * * *
112860709 AAAG-CAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
112860772 TGATTTTTTG
65 TGTTTTTTTT
* * * * **
112860782 AAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
112860847 GCTTTTTTTTT
66 G--TTTTTTTT
* *
112860858 ACA-ACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
112860922 GAATTTTTTTT
66 G--TTTTTTTT
* * *
112860933 GAAAAATATAAATTGAAA
1 -AAAGACAGAAATTGAAA
112860951 AGCAGAAATT
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
73 4 0.03
74 49 0.36
75 64 0.46
76 10 0.07
77 11 0.08
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (74 bp):
AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GTTTTTTTT
Found at i:112861170 original size:75 final size:75
Alignment explanation
Indices: 112860949--112861188 Score: 299
Period size: 74 Copynumber: 3.2 Consensus size: 75
112860939 TATAAATTGA
* * *
112860949 AAAG-CAGAAATTGAAATTACCTAAACCTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
112861012 TGA-TTTTTTG
65 TGATTTTTTTG
* * * * **
112861022 AAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
112861087 TATTTTTTTG
66 GATTTTTTTG
*
112861097 ACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
112861161 GAACTTTTTTG
66 G-ATTTTTTTG
* * *
112861172 AAAAATATAAATTGAAA
1 AAAGACAGAAATTGAAA
112861189 AGCAGAAATT
Statistics
Matches: 141, Mismatches: 21, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
73 4 0.03
74 106 0.75
75 20 0.14
76 11 0.08
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (75 bp):
AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTG
Found at i:112861276 original size:73 final size:73
Alignment explanation
Indices: 112861183--112861335 Score: 238
Period size: 73 Copynumber: 2.1 Consensus size: 73
112861173 AAAATATAAA
112861183 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
112861247 AGTTGATTT
65 AGTTGATTT
* ** *
112861256 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
112861320 AGTTGATTT
65 AGTTGATTT
112861329 TTGAAAA
1 TTGAAAA
112861336 ATAGATTGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
72 3 0.04
73 66 0.89
74 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (73 bp):
TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:112861320 original size:163 final size:158
Alignment explanation
Indices: 112861019--112861892 Score: 841
Period size: 163 Copynumber: 5.5 Consensus size: 158
112861009 AGTTGATTTT
* * * **
112861019 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
112861084 GTTTATTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
65 GTTGA--TTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
112861148 CGCAATATGAGTTGAACTTTTTTGAAAAATATAAA
128 CGCAATATGAGTTG-A--TTTTTG-AAAATATAAA
* *
112861183 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* **
112861248 GTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCG
65 GTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* *
112861313 TAATATGAGTTGATTTTTGAAAA-ATAGA
130 CAATATGAGTTGATTTTTGAAAATATAAA
* * **
112861341 TTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-ACAGAAATTGA-AATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
112861405 AGTTGATTTTTGAAAAACAGAAATTGAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTC
64 AGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
112861470 GCAATATGAGTTGATTTTTGAAAAACATAAA
129 GCAATATGAGTTGATTTTTG-AAAATATAAA
* * * **
112861501 TTG--AACAGAAATTGAAACTACCTGAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
112861564 TTGATTTTTTTTTTTGA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTAT
66 TTGA------TTTTTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
* *
112861628 TTCTCGCAATATGAATTGATTTTT-----T-T---
124 CTCTCGCAATATGAGTTGATTTTTGAAAATATAAA
*
112861654 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
112861719 TTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTG-CCTTGAG
66 TTG-A--TTTTTG----------A---CAAA-CAGAAATTGAAAATACCTCAGCGTGTCC-TGAG
112861783 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG---------A
113 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAA
* * * ** *
112861820 ---CAAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGTAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
112861882 TTGATTTTTGA
66 TTGATTTTTGA
112861893 AAAATAGATT
Statistics
Matches: 614, Mismatches: 61, Indels: 84
0.81 0.08 0.11
Matches are distributed among these distances:
150 1 0.00
152 8 0.01
153 3 0.00
155 58 0.09
156 4 0.01
157 52 0.08
158 139 0.23
159 11 0.02
160 19 0.03
162 13 0.02
163 186 0.30
164 60 0.10
165 2 0.00
166 58 0.09
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (158 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTGAAAATATAAA
Found at i:112861406 original size:158 final size:159
Alignment explanation
Indices: 112861019--112861835 Score: 842
Period size: 158 Copynumber: 5.0 Consensus size: 159
112861009 AGTTGATTTT
* * * **
112861019 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
112861084 GTTTATTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
65 GTTGA--TTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
112861148 CGCAATATGAGTTGAACTTTTTTGAAAAATATAAA
128 CGCAATATGAGTTG-A--TTTTTGAAAAACATAAA
* *
112861183 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* **
112861248 GTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCG
65 GTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* *
112861313 TAATATGAGTTGATTTTTG-AAAA-ATAGA
130 CAATATGAGTTGATTTTTGAAAAACATAAA
* * **
112861341 TTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-ACAGAAATTGA-AATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* *
112861405 AGTTGATTTTTGAAAAACAGAAATTGAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTC
64 AGTTGATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
112861470 GCAATATGAGTTGATTTTTGAAAAACATAAA
129 GCAATATGAGTTGATTTTTGAAAAACATAAA
* * * **
112861501 TTG--AACAGAAATTGAAACTACCTGAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
112861564 TTGATTTTTTTTTTTGA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTAT
66 TTGA------TTTTTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
* * *
112861628 TTCTCGCAATATGAATTGATTTTT--------T--T
124 CTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA
*
112861654 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
112861719 TTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTG-CCTTGAG
66 TTG-A--TTTTTG----------A---CAAA-CAGAAATTGAAAATACCTCAGCGTGTCC-TGAG
* *
112861783 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA
113 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAA
112861830 TTGAAA
1 TTGAAA
112861836 TTACCTCAGC
Statistics
Matches: 553, Mismatches: 57, Indels: 74
0.81 0.08 0.11
Matches are distributed among these distances:
152 8 0.01
153 3 0.01
155 59 0.11
156 3 0.01
157 52 0.09
158 139 0.25
159 11 0.02
160 13 0.02
162 12 0.02
163 128 0.23
164 60 0.11
165 2 0.00
166 58 0.10
176 5 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (159 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTGAAAAACATAAA
Found at i:112861486 original size:231 final size:229
Alignment explanation
Indices: 112861183--112861896 Score: 691
Period size: 239 Copynumber: 3.0 Consensus size: 229
112861173 AAAATATAAA
* *
112861183 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
* *
112861247 AGTTGATTTTTG-AC-A-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTT
65 AGTTGATTTTTGAACAATAACAGAAATTGAAACTACCTCAACGTGTCCTGAGGCTCAACTCATTT
* * *
112861309 CTCGTAATATGAGTTGATTTTTGAAAAATAGATTGAAACACAAAAATTGACAATACCTCAGCGTG
130 CTCGCAATATGAGTTGATTTTT------TAGATTGAAACACAAAAATTGAAAATACCTCAGCATG
*
112861374 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
189 CCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
* *
112861414 TTGAAAAACAGAAATTGAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
112861479 GTTGATTTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTGAACGTGTCTTGAGGCTCAA
66 GTTGATTTTTG---AAC---AA-T-AACAGAAATTGAAACTACCTCAACGTGTCCTGAGGCTCAA
*** *
112861544 CTCATTTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCAT
123 CTCATTTCTCGCAATATGAGTTGATTTTTTAGATTGAAACACAAAAATTGAAAATACCTCAGCAT
* ** * **
112861609 GTCTTGAGGCTCAACTTATTTCTCGCAATATGAATTGATTTTTTT
188 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGA---TTTT
* *
112861654 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
112861718 GTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTG-CCTTGA
66 GTTG-A--TTTTTG----A-A-CAA-T---AA-CAGAAATTGAAACTACCTCAACGTGTCC-TGA
** * * *
112861782 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-GA---CAA-ACAGAAATTGAAATTACC
116 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAGATTGAAACACAAAAATTGAAAATACC
* * ** ** * *
112861841 TCAGCGTGTCCTAAGGCTCAACTCATTTCTCGTAATATGAGTTGA-TTT
181 TCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
112861889 TTGAAAAA
1 TTGAAAAA
112861897 TAGATTGAAA
Statistics
Matches: 412, Mismatches: 44, Indels: 49
0.82 0.09 0.10
Matches are distributed among these distances:
231 69 0.17
232 2 0.00
235 8 0.02
236 64 0.16
239 117 0.28
240 9 0.02
242 74 0.18
243 4 0.01
244 9 0.02
245 56 0.14
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (229 bp):
TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAACAATAACAGAAATTGAAACTACCTCAACGTGTCCTGAGGCTCAACTCATTTC
TCGCAATATGAGTTGATTTTTTAGATTGAAACACAAAAATTGAAAATACCTCAGCATGCCCCGAG
GCTCAACTCACCTCTCGCAATATGAATTGATTTT
Found at i:112861631 original size:79 final size:78
Alignment explanation
Indices: 112861341--112861730 Score: 409
Period size: 73 Copynumber: 5.0 Consensus size: 78
112861331 GAAAAATAGA
* * * * **
112861341 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
112861406 GTTGA-----TTT
66 GTTGATTTTTTTT
* * *
112861414 TTGAAAAACAGAAATTGAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
***
112861479 GTTGATTTTTGAAAAAC
66 GTTGATTTTT----TTT
* * * * **
112861496 AT-AAATTGAACAGAAATTGAAACTACCTGAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTGAAA--G-ACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
112861560 TGAGTTGATTTTTTTTT
63 TGAGTTGA-TTTTTTTT
* * * **
112861577 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTATTTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
112861642 ATTGA-TTTTTTT
66 GTTGATTTTTTTT
* *
112861654 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
112861718 GTTGAATTTTTTT
66 GTTGATTTTTTTT
112861731 GAAAAATATA
Statistics
Matches: 265, Mismatches: 37, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
73 64 0.24
76 56 0.21
77 19 0.07
79 56 0.21
80 1 0.00
81 4 0.02
82 4 0.02
84 56 0.21
85 5 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (78 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTT
Found at i:112861697 original size:76 final size:76
Alignment explanation
Indices: 112861504--112861749 Score: 323
Period size: 76 Copynumber: 3.2 Consensus size: 76
112861494 ACATAAATTG
* * *
112861504 AACAGAAATTGAAACTACCTGAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
112861569 TTTTTTTTTTGAA
65 -TTTTTTTTTGAA
* * * *
112861582 AGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTATTTCTCGCAATATGAATTGA
1 A-ACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
112861647 TTTTTTTTTGAC
65 TTTTTTTTTGAA
* **
112861659 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
*
112861723 ATTTTTTTGAAA
66 TTTTTTTTG-AA
* *
112861735 AATATAAATTGAAAA
1 AACAGAAATTGAAAA
112861750 GCAGAAATTG
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
75 8 0.05
76 69 0.47
77 12 0.08
78 1 0.01
79 56 0.38
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (76 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
TTTTTTTTGAA
Found at i:112861818 original size:402 final size:401
Alignment explanation
Indices: 112860691--112862072 Score: 1588
Period size: 402 Copynumber: 3.4 Consensus size: 401
112860681 AAGGCAAAAA
* * * *
112860691 TTGAAAAACAGAAATTGAAAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTAC
1 TTGAAAAACATAAATTG--AA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCAC
*
112860756 CTCTCGCAGTATGAGTTGA-----TTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTT
63 CTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTT
*
112860816 GAGGCTCAACTCATTTCTCGCAATATGAGTTGCTTTTTTTTT-ACAACAGAAATTGAAATTACCT
128 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCT
*
112860880 CAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAA
193 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTTTTTGAAAAATATAAA
* *
112860945 TTGAAAAGCAGAAATTGAAATTACCTAAACCTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
257 TTGAAAAGCAGAAATTGAAA-TACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
112861010 GTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTC
321 GTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTC
*
112861075 GCAATATGAGTTTATTT
385 GCAATATGAGTTGATTT
** * * *
112861092 TT--------TTGA--CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
1 TTGAAAAACATAAATTGAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* * *
112861147 TCGCAATATGAGTTGAACTTTTTTGAAAAATATAAATTGAAA-AGCAGAAATTGAAATTACCTCA
66 TCGCAATATGAGTTG-A-TTTTTT------T-T--TTTGAAAGA-CAAAAATTGAAAATACCTCA
* * * **
112861211 ACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGACAAACAGAAATT
119 GCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGAC-AACAGAAATT
** *
112861272 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTG-A--TTTTTG-A
183 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAA
* * * **
112861333 AAA-ATAGATTGAAACA-CAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT
248 AAATATAAATTGAAA-AGCAGAAATTGA-AATACCTCAACGTGCCTTGAGGCTCAACTCACCTCT
*
112861396 CGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACATCAGCGTGTCCTGAGGCTCAAC
311 CGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
**
112861461 TCACCTCTCGCAATATGAGTTGATTT
376 TCATTTCTCGCAATATGAGTTGATTT
* * **
112861487 TTGAAAAACATAAATTGAACAGAAATTGAAACTACCTGAACGTGTCTTGAGGCTCAACTCATTTC
1 TTGAAAAACATAAATTGAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
112861552 TCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAG
66 TCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAG
* *
112861617 GCTCAACTTATTTCTCGCAATATGAATTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAG
131 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAG
*
112861682 CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGA
196 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGA
112861747 AAAGCAGAAATTGAAACTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
261 AAAGCAGAAATTGAAA-TACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * *
112861812 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGTAAT
325 ATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAAT
112861877 ATGAGTTGATTTTTGAAAAAT
390 ATGAGTTGA---TT------T
* *
112861898 AGATTGAAACACAAAAATTGACATATAAATTGAAAAGTAGAAATTGAAATTACCTCAACGTGCCT
1 ---TTG-------AAAA---AC--ATAAATTG--AA-CAGAAATTGAAATTACCTCAACGTGTCT
* *
112861963 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTGAAAAACAGAAATTGAAAAT
48 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAAAAATTGAAAAT
* **
112862022 ACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
113 ACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
112862073 CCCTTGAAAA
Statistics
Matches: 825, Mismatches: 86, Indels: 118
0.80 0.08 0.11
Matches are distributed among these distances:
388 55 0.07
389 3 0.00
393 1 0.00
394 59 0.07
395 72 0.09
396 64 0.08
397 67 0.08
398 15 0.02
400 11 0.01
401 13 0.02
402 191 0.23
403 9 0.01
404 61 0.07
405 59 0.07
411 1 0.00
414 3 0.00
421 4 0.00
423 69 0.08
424 2 0.00
426 8 0.01
428 2 0.00
429 56 0.07
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (401 bp):
TTGAAAAACATAAATTGAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAG
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAG
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGA
AAAGCAGAAATTGAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGATTT
Found at i:112861841 original size:73 final size:73
Alignment explanation
Indices: 112861743--112861895 Score: 220
Period size: 73 Copynumber: 2.1 Consensus size: 73
112861733 AAAATATAAA
*
112861743 TTGAAAAGCAGAAATTGAAACTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAACTACCTCAACGTGTCC-TAAGGCTCAACTCACCTCTCGCAATATG
112861807 AGTTGATTT
65 AGTTGATTT
* * ** *
112861816 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAAGCAGAAATTGAAACTACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATG
112861880 AGTTGATTT
65 AGTTGATTT
112861889 TTGAAAA
1 TTGAAAA
112861896 ATAGATTGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
72 3 0.04
73 64 0.89
74 5 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
TTGAAAAGCAGAAATTGAAACTACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:112861919 original size:560 final size:555
Alignment explanation
Indices: 112860779--112862072 Score: 1935
Period size: 560 Copynumber: 2.3 Consensus size: 555
112860769 AGTTGATTTT
* * * * **
112860779 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
* ** * * *
112860844 GTTGCTTTTTTTTTACAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCT
66 GTTG--ATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* *
112860909 CGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTAAA
129 CGCAATATGAGTTG-A---TTTTTGAAAAACATAAATTG-AAAGCAGAAATTGAAACTACCTAAA
112860974 CCTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAA
189 CCTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAA
*
112861039 ATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTTATTTTTTTGACAACAG
254 ATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAATTTATTTTTTTGACAACAG
112861104 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACTTTT
319 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACTTTT
*
112861169 TTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCAC
384 TTGAAAAATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTGCCTTGAGGCTCAACTCAC
*
112861234 CTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
449 CTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCT
112861299 CAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATAGA
514 CAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATAGA
**
112861341 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
112861406 GTTGATTTTTGAAAAACAGAAATTGAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
66 GTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* * *
112861471 CAATATGAGTTGATTTTTGAAAAACATAAATTG-AA-CAGAAATTGAAACTACCTGAACGTGTCT
131 CAATATGAGTTGATTTTTGAAAAACATAAATTGAAAGCAGAAATTGAAACTACCTAAACCTGCCT
**
112861534 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAAAAATTGAAAAT
196 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTTGAAAGACAAAAATTGAAAAT
* *
112861599 ACCTCAGCATGTCTTGAGGCTCAACTTATTTCTCGCAATATGAATTGATTTTTTTTTGACAACAG
256 ACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAATT--TATTTTTTTGACAACAG
* *
112861664 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
319 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACTTTT
112861729 TTGAAAAATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTGCCTTGAGGCTCAACTCAC
384 TTGAAAAATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTGCCTTGAGGCTCAACTCAC
112861794 CTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCT
449 CTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCT
112861859 CAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATAGA
514 CAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATAGA
*
112861901 TTGAAACACAAAAATTGACATATAAATTGAAAAGTAGAAATTGAAATTACCTCAACGTGCCTTGA
1 TTGAAACACAAAAATTGAC-------------------------AA-TACCTCAGCGTGCCTTGA
112861966 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCG
40 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCG
*
112862031 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
105 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
112862073 CCCTTGAAAA
Statistics
Matches: 665, Mismatches: 34, Indels: 42
0.90 0.05 0.06
Matches are distributed among these distances:
553 56 0.08
554 2 0.00
556 19 0.03
558 70 0.11
559 1 0.00
560 334 0.50
562 61 0.09
585 2 0.00
586 120 0.18
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (555 bp):
TTGAAACACAAAAATTGACAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTGAAAAACATAAATTGAAAGCAGAAATTGAAACTACCTAAACCTGCCT
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTC
AGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAATTTATTTTTTTGACAACAGAAATTGA
AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACTTTTTTGAAAA
ATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCA
TTTCTCGTAATATGAGTTGATTTTTGAAAAATAGA
Found at i:112862045 original size:184 final size:184
Alignment explanation
Indices: 112861736--112862072 Score: 593
Period size: 184 Copynumber: 1.8 Consensus size: 184
112861726 TTTTTGAAAA
112861736 ATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGC
1 ATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGC
* *
112861801 AATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCA
66 AATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCA
** *
112861866 TTTCTCGTAATATGAGTTGATTTTTGAAAAATAGATTGAAACACAAAAATTGAC
131 CCTCTCGCAATATGAGTTGATTTTTGAAAAATAGATTGAAACACAAAAATTGAC
* *
112861920 ATATAAATTGAAAAGTAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGC
1 ATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGC
* *
112861985 AATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA
66 AATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCA
112862050 CCTCTCGCAATATGAGTTGATTT
131 CCTCTCGCAATATGAGTTGATTT
112862073 CCCTTGAAAA
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
184 144 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (184 bp):
ATATAAATTGAAAAGCAGAAATTGAAACTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTGAAAAATAGATTGAAACACAAAAATTGAC
Found at i:112862046 original size:73 final size:73
Alignment explanation
Indices: 112861927--112862072 Score: 247
Period size: 73 Copynumber: 2.0 Consensus size: 73
112861917 GACATATAAA
** *
112861927 TTGAAAAGTAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
112861992 GTTGATTT
66 GTTGATTT
* *
112862000 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
112862065 GTTGATTT
66 GTTGATTT
112862073 CCCTTGAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:112869013 original size:47 final size:47
Alignment explanation
Indices: 112868904--112869014 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
112868894 CCGGGATAAG
*
112868904 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
112868951 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
112868998 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
112869015 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:112876266 original size:47 final size:47
Alignment explanation
Indices: 112876157--112876267 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
112876147 CCGGGATAAG
*
112876157 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
112876204 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
112876251 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
112876268 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:112879422 original size:14 final size:14
Alignment explanation
Indices: 112879403--112879429 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112879393 TCTGATTCTG
112879403 AAAGTCAACACCGT
1 AAAGTCAACACCGT
112879417 AAAGTCAACACCG
1 AAAGTCAACACCG
112879430 GTGCCTCTGT
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:0.44, C:0.30, G:0.15, T:0.11
Consensus pattern (14 bp):
AAAGTCAACACCGT
Found at i:112883529 original size:47 final size:47
Alignment explanation
Indices: 112883420--112883530 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
112883410 CCGGGATAAG
*
112883420 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
112883467 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
112883514 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
112883531 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:112888955 original size:16 final size:15
Alignment explanation
Indices: 112888934--112888981 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
112888924 GATGTGAATA
112888934 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
112888950 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
112888965 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
112888981 A
1 A
112888982 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:112888957 original size:24 final size:24
Alignment explanation
Indices: 112888930--112888985 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
112888920 TAATGATGTG
*
112888930 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
112888954 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
112888978 AATAATAA
1 AATAATAA
112888986 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:112888964 original size:8 final size:8
Alignment explanation
Indices: 112888930--112888981 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
112888920 TAATGATGTG
*
112888930 AATAATAA
1 AATATTAA
112888938 AATATATAA
1 AATAT-TAA
112888947 AATA-TAA
1 AATATTAA
112888954 AATATTAA
1 AATATTAA
*
112888962 AATATCAA
1 AATATTAA
*
112888970 AATATTAG
1 AATATTAA
112888978 AATA
1 AATA
112888982 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:112889164 original size:25 final size:25
Alignment explanation
Indices: 112889136--112889184 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
112889126 CGTGATAATA
** *
112889136 TTAAAAATATGTATATAATATAGTG
1 TTAAAAATACATACATAATATAGTG
112889161 TTAAAAATACATACATAATATAGT
1 TTAAAAATACATACATAATATAGT
112889185 TAAGATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (25 bp):
TTAAAAATACATACATAATATAGTG
Found at i:112889231 original size:62 final size:60
Alignment explanation
Indices: 112889165--112889301 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 60
112889155 ATAGTGTTAA
* * * *
112889165 AAATACATACATAATATAGTTAAGATATATACATAAGATAACATGTAAAA-ATATATATATAT
1 AAATA-ATACATAATATAGTAAAGATAAATACATAAAAT-A-ATATAAAATATATATATATAT
*
112889227 AAATAAT--ATAATAT--TAAAGATAAATACATAAAATAGTATAAAATATATATATATAT
1 AAATAATACATAATATAGTAAAGATAAATACATAAAATAATATAAAATATATATATATAT
* *
112889283 ATATATATACGTAATATAG
1 AAATA-ATACATAATATAG
112889302 AATTTAAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
55 6 0.10
56 17 0.27
57 19 0.31
59 13 0.21
61 2 0.03
62 5 0.08
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (60 bp):
AAATAATACATAATATAGTAAAGATAAATACATAAAATAATATAAAATATATATATATAT
Found at i:112889244 original size:15 final size:16
Alignment explanation
Indices: 112889210--112889291 Score: 55
Period size: 16 Copynumber: 5.1 Consensus size: 16
112889200 AGATAACATG
112889210 TAAAAATATATATATA
1 TAAAAATATATATATA
112889226 TAAATAATATA-ATAT-
1 TAAA-AATATATATATA
* *
112889241 TAAAGATA-A-ATACA
1 TAAAAATATATATATA
*
112889255 TAAAATAGTATAAAATATA
1 TAAAA-A-TAT-ATATATA
* *
112889274 TATATATATATATATA
1 TAAAAATATATATATA
112889290 TA
1 TA
112889292 CGTAATATAG
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 4 0.08
14 7 0.13
15 5 0.10
16 18 0.35
17 9 0.17
18 2 0.04
19 7 0.13
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAAATATATATATA
Found at i:112889986 original size:24 final size:24
Alignment explanation
Indices: 112889938--112889986 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
112889928 TGTTTTTTTT
**
112889938 GGGGGGTTAGGTTTTTTTTTTGGG
1 GGGGGGTTAGGTTTTTTTTGGGGG
112889962 GGGGGGTTAGGTTTTTTTTGGGGG
1 GGGGGGTTAGGTTTTTTTTGGGGG
112889986 G
1 G
112889987 CTTAATGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.04, C:0.00, G:0.51, T:0.45
Consensus pattern (24 bp):
GGGGGGTTAGGTTTTTTTTGGGGG
Found at i:112893439 original size:3 final size:3
Alignment explanation
Indices: 112893431--112893493 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
112893421 TTATTTCATT
* * * *
112893431 TTA TTA TTA TTA TTT TTA CTA TTA TTA TTA TTAA CCTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA
*
112893478 TTA TTA GTA -TA TTA TT
1 TTA TTA TTA TTA TTA TT
112893494 GTCTCTCTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 2 0.04
5 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:112893493 original size:58 final size:57
Alignment explanation
Indices: 112893431--112893540 Score: 125
Period size: 58 Copynumber: 1.9 Consensus size: 57
112893421 TTATTTCATT
* * *
112893431 TTATTAT-TAT-TATTTTTACTATTATTATTATTAACCTATTATTATTTTTATTAGTATA
1 TTATTATCTATCT-TTTTTA-TATCATTATTATTAACATATT-TTATTATTATTAGTATA
* * *
112893489 TTATTGTCTCTCTTTTTTATATCATTGTTATTAACATATTTTATTATTATTA
1 TTATTATCTATCTTTTTTATATCATTATTATTAACATATTTTATTATTATTA
112893541 ATGTACTGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
57 11 0.25
58 24 0.55
59 8 0.18
60 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (57 bp):
TTATTATCTATCTTTTTTATATCATTATTATTAACATATTTTATTATTATTAGTATA
Done.