Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008647.1 Hibiscus syriacus cultivar Beakdansim tig00111634_pilon, whole genome shotgun sequence
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: 1422586
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1089423 original size:3 final size:3
Alignment explanation
Indices: 1089415--1089453 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1089405 TATAACCCTA
1089415 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1089454 TCCCCGAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1093398 original size:21 final size:21
Alignment explanation
Indices: 1093374--1093470 Score: 131
Period size: 21 Copynumber: 4.6 Consensus size: 21
1093364 GTGAATCGGG
*
1093374 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
*
1093395 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
*
1093416 CTCTTGAATGATGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
1093437 CTCTTGAATGATAGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* *
1093458 TTCTTGAATGATG
1 CTCTTGAACGATG
1093471 ACAGGTGAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:1093636 original size:4 final size:4
Alignment explanation
Indices: 1093615--1093648 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
1093605 GGGTCGCTAA
* *
1093615 AAAT AAAT TAAT ACAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1093649 TGCCGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:1093769 original size:21 final size:21
Alignment explanation
Indices: 1093745--1093798 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1093735 TGAAACAATC
*
1093745 TCACGTAGAGCA-ACTACCTCA
1 TCACGTAAAGCAGA-TACCTCA
*
1093766 TCACGTAAAGTAGATACCTCA
1 TCACGTAAAGCAGATACCTCA
*
1093787 CCACGTAAAGCA
1 TCACGTAAAGCA
1093799 CCATTGTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.19
Consensus pattern (21 bp):
TCACGTAAAGCAGATACCTCA
Found at i:1093809 original size:42 final size:41
Alignment explanation
Indices: 1093763--1093843 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 41
1093753 AGCAACTACC
**
1093763 TCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTG
1 TCATCACGTAAAACAGATACCTCACCACGTAAAG-ACCATTG
** **
1093805 TCATCGTGTAAAACATCTACCTCACCACGTAAAGACCAT
1 TCATCACGTAAAACAGATACCTCACCACGTAAAGACCAT
1093844 ACCTCATCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 5 0.15
42 28 0.85
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (41 bp):
TCATCACGTAAAACAGATACCTCACCACGTAAAGACCATTG
Found at i:1094082 original size:42 final size:41
Alignment explanation
Indices: 1094035--1094133 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 41
1094025 GTGATGGAAT
*
1094035 AGGTGATAGCTCTCGGTGTAGATG-TGTATAATCGGCTCGACC
1 AGGTGAT-GCTCTCGGTGTAGA-GCTGTAGAATCGGCTCGACC
* *
1094077 AGGTGATGGCTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
1 AGGTGAT-GCTCTCGGTGTAGAGCTGTAGAATCGGCTCGACC
1094119 AGGTGATGACTCTCG
1 AGGTGATG-CTCTCG
1094134 AAGTGGGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 2 0.04
42 49 0.96
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.27
Consensus pattern (41 bp):
AGGTGATGCTCTCGGTGTAGAGCTGTAGAATCGGCTCGACC
Found at i:1095691 original size:20 final size:20
Alignment explanation
Indices: 1095654--1095691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1095644 CTAAAATCGC
* *
1095654 GTTGCGAATTTCATTTTCGT
1 GTTGCGAATTTAAGTTTCGT
1095674 GTTGCGAATTTAAGTTTC
1 GTTGCGAATTTAAGTTTC
1095692 AAAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (20 bp):
GTTGCGAATTTAAGTTTCGT
Found at i:1096221 original size:20 final size:20
Alignment explanation
Indices: 1096198--1096350 Score: 96
Period size: 20 Copynumber: 7.5 Consensus size: 20
1096188 TGACTTATGT
*
1096198 GTTGCGAATTACAAATTCGC
1 GTTGCGAATTAGAAATTCGC
* * *
1096218 GTTGCGATTTACATATTCGC
1 GTTGCGAATTAGAAATTCGC
* *
1096238 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAA-TTAGAAATTCGC
* *
1096259 GTTGCGGAA-AAGAAATTCGA
1 GTTGC-GAATTAGAAATTCGC
* *
1096279 GTTGTGAATTTGGGAAATTCGC
1 GTTGCGAA-TT-AGAAATTCGC
* * *
1096301 GTTGCGAATTTGGAAACT-GT
1 GTTGCGAA-TTAGAAATTCGC
* *
1096321 GTTGCGAAATT-GGAGTTCGC
1 GTTGCG-AATTAGAAATTCGC
1096341 GTTGCGAATT
1 GTTGCGAATT
1096351 TGTTGGTCAT
Statistics
Matches: 104, Mismatches: 22, Indels: 15
0.74 0.16 0.11
Matches are distributed among these distances:
19 10 0.10
20 52 0.50
21 21 0.20
22 21 0.20
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTAGAAATTCGC
Found at i:1099864 original size:21 final size:20
Alignment explanation
Indices: 1099840--1099901 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
1099830 GTTTCGTTTG
1099840 TTTACATTATTTTCTCTATTA
1 TTTAC-TTATTTTCTCTATTA
*
1099861 TTTACCTATTTT-T-TATTA
1 TTTACTTATTTTCTCTATTA
1099879 TATT--TTATTTTCTCTA-TA
1 T-TTACTTATTTTCTCTATTA
1099897 TTTAC
1 TTTAC
1099902 ACTGCATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
17 8 0.24
18 10 0.29
19 5 0.15
20 6 0.18
21 5 0.15
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTACTTATTTTCTCTATTA
Found at i:1104647 original size:111 final size:112
Alignment explanation
Indices: 1104515--1104744 Score: 381
Period size: 112 Copynumber: 2.1 Consensus size: 112
1104505 GTTATAGGTG
* *
1104515 CATTTCGACATACTTTGTGTATG-ATAGTATCGATCGATTTAGTTTAATGCATAACGGTGCATTT
1 CATTTCGACATACTTTGTGTATGAAAAGTATCGATCGATTTAGCTTAATGCATAACGGTGCATTT
* *
1104579 TTGGCATAAAATGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
66 TCGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
* * *
1104626 CATTTTGACATACTTTGTGTATGAAAATTATCGATCGATTTTGCTTAATGCATAACGGTGCATTT
1 CATTTCGACATACTTTGTGTATGAAAAGTATCGATCGATTTAGCTTAATGCATAACGGTGCATTT
*
1104691 TCGGCATAAAAGGTTCCACCCATGGTATTCATAATGAGGTGAATTAC
66 TCGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
1104738 CATTTCG
1 CATTTCG
1104745 GCACTTCGGT
Statistics
Matches: 109, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
111 22 0.20
112 87 0.80
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (112 bp):
CATTTCGACATACTTTGTGTATGAAAAGTATCGATCGATTTAGCTTAATGCATAACGGTGCATTT
TCGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
Found at i:1110154 original size:12 final size:12
Alignment explanation
Indices: 1110137--1110167 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1110127 GCTCGTATAA
1110137 GTATTATATATT
1 GTATTATATATT
1110149 GTATTATATATT
1 GTATTATATATT
1110161 GTATTAT
1 GTATTAT
1110168 GTTATAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (12 bp):
GTATTATATATT
Found at i:1110307 original size:21 final size:21
Alignment explanation
Indices: 1110282--1110349 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
1110272 TTTCATCTGT
1110282 ATATTGTATTACGTTTATATA
1 ATATTGTATTACGTTTATATA
* * * * *
1110303 ATATTTTAAAATA-TTTTCTATG
1 ATATTGT--ATTACGTTTATATA
1110325 A-ATTGTATTACGTTTATATA
1 ATATTGTATTACGTTTATATA
1110345 ATATT
1 ATATT
1110350 TTAAAATTTT
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
19 3 0.09
20 7 0.21
21 13 0.39
22 7 0.21
23 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.53
Consensus pattern (21 bp):
ATATTGTATTACGTTTATATA
Found at i:1111453 original size:15 final size:14
Alignment explanation
Indices: 1111433--1111510 Score: 66
Period size: 15 Copynumber: 5.2 Consensus size: 14
1111423 GTGGCATAAT
1111433 TAAAATAACATAACA
1 TAAAATAA-ATAACA
1111448 TAAAATATAATAACA
1 TAAAATA-AATAACA
*
1111463 TAAATTAAAATAACA
1 TAAAAT-AAATAACA
* * *
1111478 TAAATTTCAATACCA
1 TAAA-ATAAATAACA
*
1111493 TAAAATACAATTACA
1 TAAAATA-AATAACA
1111508 TAA
1 TAA
1111511 TTATAGTACA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
14 1 0.02
15 47 0.90
16 4 0.08
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAAATAAATAACA
Found at i:1111461 original size:20 final size:20
Alignment explanation
Indices: 1111436--1111474 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1111426 GCATAATTAA
1111436 AATAACATAACA-TAAAATAT
1 AATAACATAA-ATTAAAATAT
1111456 AATAACATAAATTAAAATA
1 AATAACATAAATTAAAATA
1111475 ACATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (20 bp):
AATAACATAAATTAAAATAT
Found at i:1111480 original size:20 final size:19
Alignment explanation
Indices: 1111427--1111480 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 19
1111417 ATTCTCGTGG
1111427 CATAATTAAAATAACATAA
1 CATAATTAAAATAACATAA
*
1111446 CATAA--AATAT-A-ATAA
1 CATAATTAAAATAACATAA
1111461 CATAAATTAAAATAACATAA
1 CAT-AATTAAAATAACATAA
1111481 ATTTCAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
15 7 0.25
16 3 0.11
17 4 0.14
18 4 0.14
19 6 0.21
20 4 0.14
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (19 bp):
CATAATTAAAATAACATAA
Found at i:1113302 original size:15 final size:15
Alignment explanation
Indices: 1113274--1113334 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
1113264 GATTGGTAAG
*
1113274 TCTTCATTCTTCTTCT
1 TCTT-ATTCATCTTCT
*
1113290 TCTTATTCATCTTTT
1 TCTTATTCATCTTCT
*
1113305 TCTTCTTCATTTCTATCT
1 TCTTATTCA--TCT-TCT
1113323 TCTTATTC-TCTT
1 TCTTATTCATCTT
1113335 TTTCAAGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
14 1 0.03
15 20 0.54
16 4 0.11
17 3 0.08
18 9 0.24
ACGTcount: A:0.10, C:0.26, G:0.00, T:0.64
Consensus pattern (15 bp):
TCTTATTCATCTTCT
Found at i:1113322 original size:21 final size:21
Alignment explanation
Indices: 1113283--1113323 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1113273 GTCTTCATTC
*
1113283 TTCTTCTTCTTATTCATCTTT
1 TTCTTCTTCATATTCATCTTT
1113304 TTCTTCTTCAT-TTCTATCTT
1 TTCTTCTTCATATTC-ATCTT
1113324 CTTATTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (21 bp):
TTCTTCTTCATATTCATCTTT
Found at i:1113978 original size:3 final size:3
Alignment explanation
Indices: 1113955--1113995 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1113945 CAATCTATCC
* * *
1113955 TCA TCA ACA TCA CCG TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1113996 GTTGTCATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (3 bp):
TCA
Found at i:1119485 original size:81 final size:81
Alignment explanation
Indices: 1119350--1119509 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 81
1119340 TAACACAGAT
* * * **
1119350 GATTTGGTGTTTTAGGAGAGTCCAATAGGTTATTGGTTTGGCGTATATTTTCAATGTCAGGTGTG
1 GATTTGATGTTTTAGGAGAGTCCAATAGGTTAATGGTTTGGCGTATATTTTCAATGTCACGTACG
1119415 GTAGTGGTGTTAGGTG
66 GTAGTGGTGTTAGGTG
* ** * ** * *
1119431 GATTTGATGTTTTTGGAGAGTTTAATGGGTTAATGGTTTGGTTTATGTTTTCAATTTCACGTACG
1 GATTTGATGTTTTAGGAGAGTCCAATAGGTTAATGGTTTGGCGTATATTTTCAATGTCACGTACG
1119496 GTAGTGGTGTTAGG
66 GTAGTGGTGTTAGG
1119510 CAGTTGTATT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.19, C:0.06, G:0.33, T:0.43
Consensus pattern (81 bp):
GATTTGATGTTTTAGGAGAGTCCAATAGGTTAATGGTTTGGCGTATATTTTCAATGTCACGTACG
GTAGTGGTGTTAGGTG
Found at i:1121088 original size:39 final size:39
Alignment explanation
Indices: 1121045--1121123 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 39
1121035 TACTAATAAA
*
1121045 ATAAAATACTAATAAT-TAATCTTAATCGTAATATAACTC
1 ATAAAATACTAATAATGT-ATCCTAATCGTAATATAACTC
1121084 ATAAAATACTAATAATGTATCCTAATCGTAATATAACTC
1 ATAAAATACTAATAATGTATCCTAATCGTAATATAACTC
1121123 A
1 A
1121124 GATAAATATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 37 0.97
40 1 0.03
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (39 bp):
ATAAAATACTAATAATGTATCCTAATCGTAATATAACTC
Found at i:1122875 original size:20 final size:21
Alignment explanation
Indices: 1122850--1122892 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
1122840 GTAAAAAAAA
1122850 TTATTTAAAATATTAAT-TTT
1 TTATTTAAAATATTAATATTT
1122870 TTATTTAAAATATTAATATTT
1 TTATTTAAAATATTAATATTT
1122891 TT
1 TT
1122893 TAATATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTTAAAATATTAATATTT
Found at i:1123056 original size:21 final size:22
Alignment explanation
Indices: 1123031--1123071 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1123021 AAAAAATTAT
1123031 TTAAAAAATTAAT-TTTTTTAC
1 TTAAAAAATTAATATTTTTTAC
*
1123052 TTAAAATATTAATATTTTTT
1 TTAAAAAATTAATATTTTTT
1123072 TAATATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAAAAAATTAATATTTTTTAC
Found at i:1128296 original size:20 final size:20
Alignment explanation
Indices: 1128259--1128297 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1128249 GACGTGGAGA
* *
1128259 TTGAGAATTAATGAGATAGT
1 TTGAGAATCAATCAGATAGT
*
1128279 TTGAGAATCAATCTGATAG
1 TTGAGAATCAATCAGATAG
1128298 ATTATTCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.33
Consensus pattern (20 bp):
TTGAGAATCAATCAGATAGT
Found at i:1131669 original size:20 final size:20
Alignment explanation
Indices: 1131639--1131694 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
1131629 ACAGGTAACG
1131639 AATTGGACAAAACCGATTGGA
1 AATT-GACAAAACCGATTGGA
1131660 AATTGACAAAA-CGATTGGA
1 AATTGACAAAACCGATTGGA
* *
1131679 ATTTGGCAAAACCGAT
1 AATTGACAAAACCGAT
1131695 AAAGAACTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 17 0.53
20 11 0.34
21 4 0.12
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (20 bp):
AATTGACAAAACCGATTGGA
Found at i:1131921 original size:20 final size:20
Alignment explanation
Indices: 1131891--1131946 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
1131881 ACAGGTAACG
1131891 AATTGGACAAAACCGATTGGA
1 AATT-GACAAAACCGATTGGA
1131912 AATTGACAAAA-CGATTGGA
1 AATTGACAAAACCGATTGGA
* *
1131931 ATTTGGCAAAACCGAT
1 AATTGACAAAACCGAT
1131947 AAAGAACTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 17 0.53
20 11 0.34
21 4 0.12
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (20 bp):
AATTGACAAAACCGATTGGA
Found at i:1133092 original size:230 final size:228
Alignment explanation
Indices: 1132666--1133129 Score: 703
Period size: 230 Copynumber: 2.0 Consensus size: 228
1132656 GTATGTTGTC
* * ***
1132666 AAAACCCTAGTTTTTTAGTATTACAGTAATCAGAAATAGGGGTTAGGTTTATGGGTTTGGGGTTT
1 AAAACCCTAGTTTTTTAGTATTACAGTAATCAAAAATAGGGATTAGGTTTATGGGTTTGACATTT
* * * * *
1132731 TTGAAGTAAATAAACATTTGAGACCGATTACAGGTAGAAACTAATATTCTAGGTAGAAAATAAAT
66 TCGAAGTAAAGAAACATTTGAGACCAATTACAAGTAGAAACTAATATTCTAGGTAAAAAATAAAT
* *
1132796 ATCGATACTTTTATATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAATGTATCGATA
131 ATCGATACTTTTATATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAAGGTACCGATA
*
1132861 CTTGTAGTAGAGAGTATTCCCATTCCTTTGAAG
196 CTTGTAGTAGAGAGCATTCCCATTCCTTTGAAG
* *
1132894 GAAACCCTAGTTTTTTTAGTATTACAGTATTCAAAAATAGGGATTAGGTTTATGGGTTTGACATT
1 AAAACCCTAG-TTTTTTAGTATTACAGTAATCAAAAATAGGGATTAGGTTTATGGGTTTGACATT
* ** * * *
1132959 TTCGATGTAAAGAAGGATTTGAGACCAATTACAATTAGAAAGTGATATTCTAGGTAAAAAAATAA
65 TTCGAAGTAAAGAAACATTTGAGACCAATTACAAGTAGAAACTAATATTCTAGGT-AAAAAATAA
1133024 ATATCGATACTTTTATATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAAGGTACCGA
129 ATATCGATACTTTTATATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAAGGTACCGA
* *
1133089 TACTTGTAGTAGATAGCATTCTCATTCCTTTGAAG
194 TACTTGTAGTAGAGAGCATTCCCATTCCTTTGAAG
1133124 AAAACC
1 AAAACC
1133130 ATTTTACTGT
Statistics
Matches: 210, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
228 9 0.04
229 93 0.44
230 108 0.51
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.35
Consensus pattern (228 bp):
AAAACCCTAGTTTTTTAGTATTACAGTAATCAAAAATAGGGATTAGGTTTATGGGTTTGACATTT
TCGAAGTAAAGAAACATTTGAGACCAATTACAAGTAGAAACTAATATTCTAGGTAAAAAATAAAT
ATCGATACTTTTATATAATATTATAGGTAGAAAATGATATTGTAGGTTGTATAAAGGTACCGATA
CTTGTAGTAGAGAGCATTCCCATTCCTTTGAAG
Found at i:1134653 original size:15 final size:12
Alignment explanation
Indices: 1134619--1134650 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
1134609 GGTACAGGTG
1134619 GAAGAGAATGAA
1 GAAGAGAATGAA
1134631 GAAGAGAATGAA
1 GAAGAGAATGAA
1134643 GAAGAGAA
1 GAAGAGAA
1134651 GAAATAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.06
Consensus pattern (12 bp):
GAAGAGAATGAA
Found at i:1134659 original size:24 final size:24
Alignment explanation
Indices: 1134619--1134664 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1134609 GGTACAGGTG
*
1134619 GAAGAGAATGAAGAAGAGAATGAA
1 GAAGAGAATGAAGAAGAAAATGAA
*
1134643 GAAGAGAA-GAAATAAGAAAATG
1 GAAGAGAATG-AAGAAGAAAATG
1134665 TAGTAAGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.09
Consensus pattern (24 bp):
GAAGAGAATGAAGAAGAAAATGAA
Found at i:1140453 original size:20 final size:21
Alignment explanation
Indices: 1140410--1140455 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1140400 GTAAACATAA
*
1140410 AGTATCAATACTTATTATTCC
1 AGTATCAATACTTATTATTAC
*
1140431 AGTATCGATACTT-TTATTAC
1 AGTATCAATACTTATTATTAC
1140451 AGTAT
1 AGTAT
1140456 AAATCTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (21 bp):
AGTATCAATACTTATTATTAC
Found at i:1140497 original size:22 final size:21
Alignment explanation
Indices: 1140472--1140516 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1140462 CAAACAATTT
1140472 ACATGCAAAAAAGTATCGATAC
1 ACATG-AAAAAAGTATCGATAC
* *
1140494 ACATGTATAAAGTATCGATAC
1 ACATGAAAAAAGTATCGATAC
1140515 AC
1 AC
1140517 GAAATTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (21 bp):
ACATGAAAAAAGTATCGATAC
Found at i:1140641 original size:26 final size:26
Alignment explanation
Indices: 1140612--1140661 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
1140602 TAAATAGCAA
*
1140612 GTATCGATACGCTTTGTATAGGTAAC
1 GTATCGATACACTTTGTATAGGTAAC
* *
1140638 GTATTGATACATTTTGTATAGGTA
1 GTATCGATACACTTTGTATAGGTA
1140662 TCGATACTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (26 bp):
GTATCGATACACTTTGTATAGGTAAC
Found at i:1142016 original size:34 final size:35
Alignment explanation
Indices: 1141942--1142022 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
1141932 CTATGGGAAA
1141942 GGTATCGATACCAGGAAACATCGAACCTATTTTTT
1 GGTATCGATACCAGGAAACATCGAACCTATTTTTT
* * *
1141977 TGTATCAATACCAGGCAACATCGAACCTA-TTTTT
1 GGTATCGATACCAGGAAACATCGAACCTATTTTTT
1142011 GGTATCGATACC
1 GGTATCGATACC
1142023 CGAAGAGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 15 0.37
35 26 0.63
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (35 bp):
GGTATCGATACCAGGAAACATCGAACCTATTTTTT
Found at i:1142507 original size:55 final size:55
Alignment explanation
Indices: 1142417--1142616 Score: 319
Period size: 55 Copynumber: 3.6 Consensus size: 55
1142407 TACTACGAGT
* * * *
1142417 ACTTCGTGTGCATATTCACGGAATTCACCATGAGTTGATGAATCATCGTATAGGC
1 ACTTCGTGTGCATATTCACGAAATTCATCATGAGTTGATGAATCACCGTACAGGC
*
1142472 ACTTCGTGTGCATATTCACGAAATTCATCACGAGTTGATGAATCACCGTACAGGC
1 ACTTCGTGTGCATATTCACGAAATTCATCATGAGTTGATGAATCACCGTACAGGC
* *
1142527 ACTTCGTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAGAC
1 ACTTCGTGTGCATATTCACGAAATTCATCATGAGTTGATGAATCACCGTACAGGC
* *
1142582 ACTTCGTGTGTATATTCACGGAATTCATCATGAGT
1 ACTTCGTGTGCATATTCACGAAATTCATCATGAGT
1142617 GGTGTGTGCA
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 135 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (55 bp):
ACTTCGTGTGCATATTCACGAAATTCATCATGAGTTGATGAATCACCGTACAGGC
Found at i:1142630 original size:33 final size:33
Alignment explanation
Indices: 1142587--1142649 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
1142577 CAGACACTTC
* *
1142587 GTGTGTATATTCACGGAATTCATCATGAGTGGT
1 GTGTGCATATTCACGAAATTCATCATGAGTGGT
1142620 GTGTGCATATTCACGAAATTCATCATGAGT
1 GTGTGCATATTCACGAAATTCATCATGAGT
1142650 TGATGAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (33 bp):
GTGTGCATATTCACGAAATTCATCATGAGTGGT
Found at i:1142681 original size:88 final size:89
Alignment explanation
Indices: 1142532--1142709 Score: 349
Period size: 88 Copynumber: 2.0 Consensus size: 89
1142522 CAGGCACTTC
1142532 GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAGACACTTCGTGTGTATAT
1 GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAGACACTTCGTGTGTATAT
1142597 TCACGGAATTCATCATGAG-TGGT
66 TCACGGAATTCATCATGAGTTGGT
1142620 GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAGACACTTCGTGTGTATAT
1 GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAGACACTTCGTGTGTATAT
1142685 TCACGGAATTCATCATGAGTTGGT
66 TCACGGAATTCATCATGAGTTGGT
1142709 G
1 G
1142710 AATCACCGTA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 84 0.94
89 5 0.06
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (89 bp):
GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAGACACTTCGTGTGTATAT
TCACGGAATTCATCATGAGTTGGT
Found at i:1142704 original size:55 final size:55
Alignment explanation
Indices: 1142620--1142743 Score: 196
Period size: 55 Copynumber: 2.3 Consensus size: 55
1142610 CATGAGTGGT
1142620 GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTAC-AGACACTTC
1 GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAAG-CACTTC
* * * *
1142675 GTGTGTATATTCACGGAATTCATCATGAGTTGGTGAATCACCGTACAAGCACTTC
1 GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAAGCACTTC
1142730 GTGTGCATATTCAC
1 GTGTGCATATTCAC
1142744 ATGCACCTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 61 0.97
56 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (55 bp):
GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAAGCACTTC
Found at i:1142740 original size:143 final size:143
Alignment explanation
Indices: 1142477--1142743 Score: 446
Period size: 143 Copynumber: 1.9 Consensus size: 143
1142467 TAGGCACTTC
* *
1142477 GTGTGCATATTCACGAAATTCATCACGAGTTGATGAATCACCGTACAGGCACTTCGTGTGCATAT
1 GTGTGCATATTCACGAAATTCATCACGAGTTGATGAAACACCGTACAGACACTTCGTGTGCATAT
*
1142542 TCACGAAATTCATCATGAGTTGATGAAACACCGTACAGACACTTCGTGTGTATATTCACGGAATT
66 TCACGAAATTCATCATGAGTTGATGAAACACCGTACAGACACTTCGTGTGCATATTCACGGAATT
1142607 CATCATGAGTGGT
131 CATCATGAGTGGT
* *
1142620 GTGTGCATATTCACGAAATTCATCATGAGTTGATGAAACACCGTACAGACACTTCGTGTGTATAT
1 GTGTGCATATTCACGAAATTCATCACGAGTTGATGAAACACCGTACAGACACTTCGTGTGCATAT
* * *
1142685 TCACGGAATTCATCATGAGTTGGTGAATCACCGTACA-AGCACTTCGTGTGCATATTCAC
66 TCACGAAATTCATCATGAGTTGATGAAACACCGTACAGA-CACTTCGTGTGCATATTCAC
1142744 ATGCACCTTG
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
142 1 0.01
143 114 0.99
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (143 bp):
GTGTGCATATTCACGAAATTCATCACGAGTTGATGAAACACCGTACAGACACTTCGTGTGCATAT
TCACGAAATTCATCATGAGTTGATGAAACACCGTACAGACACTTCGTGTGCATATTCACGGAATT
CATCATGAGTGGT
Found at i:1149061 original size:20 final size:20
Alignment explanation
Indices: 1149009--1149063 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
1148999 ATCGGTAGGA
* *
1149009 GGTATCAGTACCATAGTAGG
1 GGTATCAATACCATAGTAAG
* *
1149029 GTAGTATCGATACCATTGTAAG
1 G--GTATCAATACCATAGTAAG
1149051 GGTATCAATACCA
1 GGTATCAATACCA
1149064 GGAAACATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 12 0.43
22 16 0.57
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (20 bp):
GGTATCAATACCATAGTAAG
Found at i:1149108 original size:95 final size:96
Alignment explanation
Indices: 1148932--1149109 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 96
1148922 ATACCGATGA
* * * *
1148932 GGTAGTCTCGATACCATGATAAGGGGTATCGATACCAAGAAACATCGAATCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGATAAGGGGTATCAATACCAAGAAACATCAAACCTAATTTTGGTATCG
* ***
1148997 ATATCGGTAGGAGGTATCAGTACCATAGTAG
66 ATACCAAAAGGAGGTATCAGTACCATAGTAG
*
1149028 GGTAGTATCGATACCATTG-TAA-GGGTATCAATACCAGGAAACATCAAACCTAATTTTGGTATC
1 GGTAGTATCGATACCA-TGATAAGGGGTATCAATACCAAGAAACATCAAACCTAATTTTGGTATC
1149091 GATACCCAAAAGG-GGTATC
65 GATA-CCAAAAGGAGGTATC
1149110 GATACCCAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
95 47 0.66
96 22 0.31
97 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (96 bp):
GGTAGTATCGATACCATGATAAGGGGTATCAATACCAAGAAACATCAAACCTAATTTTGGTATCG
ATACCAAAAGGAGGTATCAGTACCATAGTAG
Found at i:1149109 original size:19 final size:19
Alignment explanation
Indices: 1149085--1149129 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1149075 ACCTAATTTT
1149085 GGTATCGATACCCAAAAGG
1 GGTATCGATACCCAAAAGG
1149104 GGTATCGATACCCAAAAGG
1 GGTATCGATACCCAAAAGG
1149123 GGTATCG
1 GGTATCG
1149130 GTATCATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (19 bp):
GGTATCGATACCCAAAAGG
Found at i:1149834 original size:55 final size:55
Alignment explanation
Indices: 1149508--1149827 Score: 462
Period size: 55 Copynumber: 5.8 Consensus size: 55
1149498 TGTACTACGG
**
1149508 GCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGACAAATCACCGTACAT
1 GCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAT
*** * *
1149563 GCACTTCGTGTGCATATTCATAAAATTCATCATGAGTTCATGAATCACCGTACAG
1 GCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAT
** * *
1149618 GCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGGCGAATCACCATACAG
1 GCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAT
* *
1149673 GCACTTCGTGTGCATATTCACGGAATTCATCATGAGATGATGAATCATCGTACAT
1 GCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAT
*
1149728 GCACTTCGTGTGCATATTCACGGAATTCATCATAAGTTGATGAATCACCGTACAT
1 GCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAT
* * * *
1149783 GCACCTT-GTGTGCAAATCCACAGAATTCATCATAAGTTGATGAAT
1 GCA-CTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAAT
1149828 TCCCGTATAG
Statistics
Matches: 238, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
55 235 0.99
56 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (55 bp):
GCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTACAT
Found at i:1156163 original size:13 final size:13
Alignment explanation
Indices: 1156142--1156204 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
1156132 TGACGCTAAT
1156142 TGCGCGTCATAAA
1 TGCGCGTCATAAA
*
1156155 TGAGCGTCATAAA
1 TGCGCGTCATAAA
* *
1156168 TGTGTGTCATAAA
1 TGCGCGTCATAAA
**
1156181 TGCGTATCATAAA
1 TGCGCGTCATAAA
1156194 TGCGCGTCATA
1 TGCGCGTCATA
1156205 GATTTGACAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (13 bp):
TGCGCGTCATAAA
Found at i:1156224 original size:39 final size:41
Alignment explanation
Indices: 1156138--1156229 Score: 111
Period size: 39 Copynumber: 2.3 Consensus size: 41
1156128 TTAATGACGC
* *
1156138 TAATTGCGCGTCATAAATGAGCGTCATAAATGTGTGTCATA
1 TAATTGCGTGTCATAAATGAGCGTCATAAATGTGTGACATA
* * *
1156179 -AA-TGCGTATCATAAATGCGCGTCATAGAT-T-TGACATA
1 TAATTGCGTGTCATAAATGAGCGTCATAAATGTGTGACATA
1156216 TAATTGCGTGTCAT
1 TAATTGCGTGTCAT
1156230 CTGATATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
37 6 0.14
38 3 0.07
39 32 0.74
40 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (41 bp):
TAATTGCGTGTCATAAATGAGCGTCATAAATGTGTGACATA
Found at i:1158693 original size:226 final size:226
Alignment explanation
Indices: 1158312--1159350 Score: 1500
Period size: 226 Copynumber: 4.6 Consensus size: 226
1158302 TTGATAATAC
* * *
1158312 TGATAACAAATCAAGTAATTAACCGATTATGTTATCAT-TGAATTTCTAAGGCTCCAGT-AGCTT
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCGTCTG-GTTTCTAAGGCT-CAATCAGCTT
1158375 AAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATT
64 AAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATT
* * *
1158440 AACCTAGTTTGTTATCTTCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACG
129 AACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACG
1158505 TTACATAAGCGCTACCTAATATGTTATTATGGT
194 TTACATAAGCGCTACCTAATATGTTATTATGGT
* * * * *
1158538 TTATAACAATTCAAGTAATTAATCGGTTATGTTATCGTCTGGTTTCTAAGGTTCAATCAGCTTAA
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCGTCTGGTTTCTAAGGCTCAATCAGCTTAA
* *
1158603 ACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAGCAAATTAATTAATTAA
66 ACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAA
* ** * * * * *
1158668 CCTATTTTGTTATCGTCAAATTTCTAAGGTCCCATCAACTTTAAAAAGGA-GTTGCCTATTATGT
131 CCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAA-GACGCTACCTATTACGT
* *
1158732 TACATAAGTGCTACCTAATATGTCATTATGGT
195 TACATAAGCGCTACCTAATATGTTATTATGGT
* * * *
1158764 TGATAACAAATCAAGTAATTAACCGATTATGTTATC-TTTGGATTTATAAGGCTCTATCAGGTTA
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCGTCTGG-TTTCTAAGGCTCAATCAGCTTA
1158828 AACTTTGGTAACATTTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATT
65 AACTTTGGTAACA-TTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATT
* * *
1158893 AACATATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTATCTATTACA
129 AACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACG
1158958 TTACATAAGCGCTACCTAATATGTTATTATGGT
194 TTACATAAGCGCTACCTAATATGTTATTATGGT
* * * * *
1158991 TTATAACAAATCAAATAATTAA-CGATTATGTTATCGTC-GGATTTCTAAAGCTCCATCAGATTA
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCGTCTGG-TTTCTAAGGCTCAATCAGCTTA
*
1159054 AAC-ATGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
65 AACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
* * *
1159118 ACCTATTTTGTTATCATCGGATTTCTAAAGCCCCATCAGTTTTAAAAAGACGCTACCTATTATGT
130 ACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACGT
1159183 TACATAAGCGCTACCTAATATGTTATTATGGT
195 TACATAAGCGCTACCTAATATGTTATTATGGT
**** * * * * ** * *
1159215 TGATAATGTTTCAAGTAATTAACCGGTTATGTTATTGGC-GAATTTCTAATACTCCATCAACTTA
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCGTCTG-GTTTCTAAGGCTCAATCAGCTTA
1159279 AACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
65 AACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
1159344 ACCTATT
130 ACCTATT
1159351 ACGATACATA
Statistics
Matches: 728, Mismatches: 75, Indels: 20
0.88 0.09 0.02
Matches are distributed among these distances:
224 159 0.22
225 50 0.07
226 364 0.50
227 155 0.21
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (226 bp):
TGATAACAAATCAAGTAATTAACCGATTATGTTATCGTCTGGTTTCTAAGGCTCAATCAGCTTAA
ACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAA
CCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACGTT
ACATAAGCGCTACCTAATATGTTATTATGGT
Found at i:1159048 original size:117 final size:117
Alignment explanation
Indices: 1158420--1159249 Score: 501
Period size: 118 Copynumber: 7.3 Consensus size: 117
1158410 TTGATAATAC
* * * *
1158420 TGATAACAAATTAAGTAATTAACCTAGTT-TGTTATCTTCGGATTTCTAAGGCCCCATCAGCTTT
1 TGATAACAAATCAAGTAATTAACCGA-TTATGTTATCATCGGATTTCTAAAGCCCCATCAG-TTT
* * *
1158484 AAAAAGGCGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGGT
64 AAAAAGACGCTATCTATTACATTACATAAGCGCTACCTAATATGTTATTATGGT
* * * * * * ** * *
1158538 TTATAACAATTCAAGTAATTAATCGGTTATGTTATCGTCTGG-TTTCTAAGGTTCAATCAGCTT-
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCATC-GGATTTCTAAAGCCCCATCAGTTTA
* * * * * * **
1158601 --AA-A--CT-T-TGGTAACATT--TTAGGCGTTACCTAATATGTTGATAAT-AC
65 AAAAGACGCTATCT-ATTACATTACATAAGCGCTACCTAATATGTT-ATTATGGT
* * * * * * ** * * *
1158646 TGATAGCAAATTAATTAATTAACCTATTTTGTTATCGTCAAATTTCTAAGGTCCCATCAACTTTA
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCATCGGATTTCTAAAGCCCCATC-AGTTTA
* ** ** * *
1158711 AAAAGGA-GTTGCCTATTATGTTACATAAGTGCTACCTAATATGTCATTATGGT
65 AAAA-GACGCTATCTATTACATTACATAAGCGCTACCTAATATGTTATTATGGT
* * * * * * *
1158764 TGATAACAAATCAAGTAATTAACCGATTATGTTATCTTTGGATTTATAAGGCTCTATCAGGTT--
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCATCGGATTTCTAAAGCCCCATCAGTTTAA
* * ** * * * **
1158827 -AA-A--CT-T-TGGTAACATT-TTTAGGCGTTACCTAATATGTTGATAAT-AC
66 AAAGACGCTATCT-ATTACATTACATAAGCGCTACCTAATATGTT-ATTATGGT
* ** * *
1158873 TGATAACAAATTAAGTAATTAACATATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTA
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCATCGGATTTCTAAAGCCCCATCAG-TTTA
1158938 AAAAGACGCTATCTATTACATTACATAAGCGCTACCTAATATGTTATTATGGT
65 AAAAGACGCTATCTATTACATTACATAAGCGCTACCTAATATGTTATTATGGT
* * * * *
1158991 TTATAACAAATCAAATAATTAA-CGATTATGTTATCGTCGGATTTCTAAAGCTCCATCAGATT--
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCATCGGATTTCTAAAGCCCCATCAGTTTAA
* * * * * **
1159053 -AA-A--C-ATGGTA--ACATT--TTAGGCGTTACCTAATATGTTGATAAT-AC
66 AAAGACGCTAT-CTATTACATTACATAAGCGCTACCTAATATGTT-ATTATGGT
* * *
1159097 TGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAAGCCCCATCAGTTTTA
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCATCGGATTTCTAAAGCCCCATCAG-TTTA
* **
1159162 AAAAGACGCTACCTATTATGTTACATAAGCGCTACCTAATATGTTATTATGGT
65 AAAAGACGCTATCTATTACATTACATAAGCGCTACCTAATATGTTATTATGGT
**** *
1159215 TGATAATGTTTCAAGTAATTAACCGGTTATGTTAT
1 TGATAACAAATCAAGTAATTAACCGATTATGTTAT
1159250 TGGCGAATTT
Statistics
Matches: 523, Mismatches: 143, Indels: 92
0.69 0.19 0.12
Matches are distributed among these distances:
106 37 0.07
107 37 0.07
108 69 0.13
109 78 0.15
110 18 0.03
111 5 0.01
112 5 0.01
113 4 0.01
114 9 0.02
115 2 0.00
116 11 0.02
117 58 0.11
118 188 0.36
119 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (117 bp):
TGATAACAAATCAAGTAATTAACCGATTATGTTATCATCGGATTTCTAAAGCCCCATCAGTTTAA
AAAGACGCTATCTATTACATTACATAAGCGCTACCTAATATGTTATTATGGT
Found at i:1159233 original size:451 final size:452
Alignment explanation
Indices: 1158312--1159350 Score: 1606
Period size: 451 Copynumber: 2.3 Consensus size: 452
1158302 TTGATAATAC
* *
1158312 TGATAACAAATCAAGTAATTAACCGATTATGTTATCATTGAATTTCTAAGGCTCCAGT-AGCTTA
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCTTTGGATTTCTAAGGCTCCA-TCAGCTTA
1158376 AACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
65 AACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
* * * *
1158441 ACCTAGTTTGTTATCTTCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGT
130 ACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACAT
* * *
1158506 TACATAAGCGCTACCTAATATGTTATTATGGTTTATAACAATTCAAGTAATTAATCGGTTATGTT
195 TACATAAGCGCTACCTAATATGTTATTATGGTTTATAACAAATCAAATAATTAATCGATTATGTT
* * * *
1158571 ATCGTCTGGTTTCTAAGGTTCAATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATG
260 ATCGTCTGGTTTCTAAAGCTCAATCAGATTAAACTATGGTAACATTTTAGGCGTTACCTAATATG
* * * * *
1158636 TTGATAATACTGATAGCAAATTAATTAATTAACCTATTTTGTTATCGTCAAATTTCTAAGGTCCC
325 TTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCAAATTTCTAAAGCCCC
* * *
1158701 ATCAACTTTAAAAAGGAGTTGCCTATTATGTTACATAAGTGCTACCTAATATGTCATTATGGT
390 ATCAACTTTAAAAAGGAGCTACCTATTATGTTACATAAGCGCTACCTAATATGTCATTATGGT
* * *
1158764 TGATAACAAATCAAGTAATTAACCGATTATGTTATCTTTGGATTTATAAGGCTCTATCAGGTTAA
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCTTTGGATTTCTAAGGCTCCATCAGCTTAA
1158829 ACTTTGGTAACATTTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
66 ACTTTGGTAACA-TTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
* *
1158894 ACATATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTATCTATTACAT
130 ACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACAT
1158959 TACATAAGCGCTACCTAATATGTTATTATGGTTTATAACAAATCAAATAATTAA-CGATTATGTT
195 TACATAAGCGCTACCTAATATGTTATTATGGTTTATAACAAATCAAATAATTAATCGATTATGTT
*
1159023 ATCGTC-GGATTTCTAAAGCTCCATCAGATTAAAC-ATGGTAACATTTTAGGCGTTACCTAATAT
260 ATCGTCTGG-TTTCTAAAGCTCAATCAGATTAAACTATGGTAACATTTTAGGCGTTACCTAATAT
**
1159086 GTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTAAAGCCC
324 GTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCAAATTTCTAAAGCCC
** *
1159151 CATCAGTTTTAAAAA-GACGCTACCTATTATGTTACATAAGCGCTACCTAATATGTTATTATGGT
389 CATCAACTTTAAAAAGGA-GCTACCTATTATGTTACATAAGCGCTACCTAATATGTCATTATGGT
**** * * ** *
1159215 TGATAATGTTTCAAGTAATTAACCGGTTATGTTA--TTGGCGAATTTCTAATACTCCATCAACTT
1 TGATAACAAATCAAGTAATTAACCGATTATGTTATCTTTG-G-ATTTCTAAGGCTCCATCAGCTT
1159278 AAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATT
64 AAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATT
1159343 AACCTATT
129 AACCTATT
1159351 ACGATACATA
Statistics
Matches: 536, Mismatches: 45, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
449 3 0.01
450 61 0.11
451 203 0.38
452 106 0.20
453 163 0.30
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (452 bp):
TGATAACAAATCAAGTAATTAACCGATTATGTTATCTTTGGATTTCTAAGGCTCCATCAGCTTAA
ACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAA
CCTATTTTGTTATCATCGGATTTCTAAGGCCCCATCAGCTTTAAAAAGACGCTACCTATTACATT
ACATAAGCGCTACCTAATATGTTATTATGGTTTATAACAAATCAAATAATTAATCGATTATGTTA
TCGTCTGGTTTCTAAAGCTCAATCAGATTAAACTATGGTAACATTTTAGGCGTTACCTAATATGT
TGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCAAATTTCTAAAGCCCCA
TCAACTTTAAAAAGGAGCTACCTATTATGTTACATAAGCGCTACCTAATATGTCATTATGGT
Found at i:1159458 original size:172 final size:172
Alignment explanation
Indices: 1159172--1159522 Score: 560
Period size: 172 Copynumber: 2.0 Consensus size: 172
1159162 AAAAGACGCT
* * ****
1159172 ACCTATTATGTTACATAAGCGCTACCTAATATGTTATTATGGTTGATAATGTTTCAAGTAATTAA
1 ACCTATTACGATACATAAGCGCTACCTAATATGTTATTATGGTTGATAACAAATCAAGTAATTAA
* * *
1159237 CCGGTTATGTTATTGGCGAATTTCTAATACTCCATCAACTTAAACTTTGGTAACATTTTAGGCGT
66 CCGATTATGTTATCGGCGAATTTCTAAGACTCCATCAACTTAAACTTTGGTAACATTTTAGGCGT
1159302 TACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
131 TACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
1159344 ACCTATTACGATACATAAGCGCTACCTAATATGTTATTATGGTTGATAACAAATCAAGTAATTAA
1 ACCTATTACGATACATAAGCGCTACCTAATATGTTATTATGGTTGATAACAAATCAAGTAATTAA
* * * *
1159409 CTGATTATGTTATCGTCGGATTTCTAGGACTCCATCATA-TTAAACTTTGGTAACATTTTAGGCG
66 CCGATTATGTTATCGGCGAATTTCTAAGACTCCATCA-ACTTAAACTTTGGTAACATTTTAGGCG
1159473 TTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
130 TTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
*
1159516 ATCTATT
1 ACCTATT
1159523 TTGTTATCAT
Statistics
Matches: 164, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
172 163 0.99
173 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (172 bp):
ACCTATTACGATACATAAGCGCTACCTAATATGTTATTATGGTTGATAACAAATCAAGTAATTAA
CCGATTATGTTATCGGCGAATTTCTAAGACTCCATCAACTTAAACTTTGGTAACATTTTAGGCGT
TACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTA
Found at i:1159684 original size:398 final size:396
Alignment explanation
Indices: 1158950--1159748 Score: 1327
Period size: 398 Copynumber: 2.0 Consensus size: 396
1158940 AAGACGCTAT
*
1158950 CTATTACATTACATAAGCGCTACCTAATATGTTATTATGGTTTATAACAAATCAAATAATTAACG
1 CTATTACATTACATAAGCGCTACCTAATATGTTATTATGGTTGATAACAAATCAAATAATTAACG
1159015 ATTATGTTATCGTCGGATTTCTAAAGCTCCATCAGATTAAACATGGTAACATTTTAGGCGTTACC
66 ATTATGTTATCGTCGGATTTCTAAAGCTCCATCAGATTAAACATGGTAACATTTTAGGCGTTACC
1159080 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTA
131 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTA
** * * *
1159145 AAGCCCCATCAGTTTTAAAAAGACGCTACCTATTATGTTACATAAGCGCTACCTAATATGTTATT
196 AAGCCCCATCAACTTTAAAAAGACACTACCTATTACGTTACATAAGCGCTACCTAATATATTATT
1159210 ATGGTTGATAATGTTTCAAGTAATTAACCGGTTATGTTATTGGCGAATTTCTAATACTCCATCAA
261 ATGGTTGATAATGTTTCAAGTAATTAACCGGTTATGTTATTGGCGAATTTCTAATACTCCATCAA
*
1159275 CTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTA
326 CTTAAACTTTGGTAACATTTTAGGCGTTACCTAACATGTTGATAATACTGATAACAAATTAAGTA
1159340 ATTAAC
391 ATTAAC
*
1159346 CTATTACGA-TACATAAGCGCTACCTAATATGTTATTATGGTTGATAACAAATCAAGTAATTAAC
1 CTATTAC-ATTACATAAGCGCTACCTAATATGTTATTATGGTTGATAACAAATCAAATAATTAAC
* * *
1159410 TGATTATGTTATCGTCGGATTTCT-AGGACTCCATCATATTAAACTTTGGTAACATTTTAGGCGT
65 -GATTATGTTATCGTCGGATTTCTAAAG-CTCCATCAGATTAAAC-ATGGTAACATTTTAGGCGT
*
1159474 TACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAATCTATTTTGTTATCATCGGATT
127 TACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATT
* *
1159539 TCTAAAGCCCCGTCAACTTTAAAAAGGCACTACCTATTACGTTACATAAGCGCTACCTAATATAT
192 TCTAAAGCCCCATCAACTTTAAAAAGACACTACCTATTACGTTACATAAGCGCTACCTAATATAT
* * * * **
1159604 TATTATGGTTGGTATTGTTTCAAGTAATTAACCTGTTATGTTATCT-TC-AGATTTCTAATGTTC
257 TATTATGGTTGATAATGTTTCAAGTAATTAACCGGTTATGTTAT-TGGCGA-ATTTCTAATACTC
*
1159667 TATCAACTTAAACTTTGGTAACATTTTAGGCGTTACCTAACATGTTGATAATACTGATAACAAAT
320 CATCAACTTAAACTTTGGTAACATTTTAGGCGTTACCTAACATGTTGATAATACTGATAACAAAT
1159732 TAAGTAATTAAC
385 TAAGTAATTAAC
1159744 CTATT
1 CTATT
1159749 TTGTTATTGT
Statistics
Matches: 376, Mismatches: 21, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
396 62 0.16
397 40 0.11
398 273 0.73
399 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (396 bp):
CTATTACATTACATAAGCGCTACCTAATATGTTATTATGGTTGATAACAAATCAAATAATTAACG
ATTATGTTATCGTCGGATTTCTAAAGCTCCATCAGATTAAACATGGTAACATTTTAGGCGTTACC
TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTCTA
AAGCCCCATCAACTTTAAAAAGACACTACCTATTACGTTACATAAGCGCTACCTAATATATTATT
ATGGTTGATAATGTTTCAAGTAATTAACCGGTTATGTTATTGGCGAATTTCTAATACTCCATCAA
CTTAAACTTTGGTAACATTTTAGGCGTTACCTAACATGTTGATAATACTGATAACAAATTAAGTA
ATTAAC
Found at i:1159738 original size:226 final size:226
Alignment explanation
Indices: 1159344--1159870 Score: 724
Period size: 226 Copynumber: 2.3 Consensus size: 226
1159334 TAAGTAATTA
* ****
1159344 ACCTATTACGATACATAAGCGCTACCTAATATGTTATTATGGTTGATAACAAATCAAGTAATTAA
1 ACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGGTTGATAATGTTTCAAGTAATTAA
*
1159409 -CTGATTATGTTATCGTCGGATTTCTAGGACTCCATCATATTAAACTTTGGTAACATTTTAGGCG
66 CCTGATTATGTTATCGTCAGATTTCTAGGACTCCATCATATTAAACTTTGGTAACATTTTAGGCG
* * *
1159473 TTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAATCTATTTTGTTATCATCGGAT
131 TTACCTAACATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCAGAT
*
1159538 TTCTAAAGCCCCGTCAACTTTAAAAAGGCACT
196 TTCTAAAGCCCCATCAAC-TTAAAAAGGCACT
* * *
1159570 ACCTATTACGTTACATAAGCGCTACCTAATATATTATTATGGTTGGTATTGTTTCAAGTAATTAA
1 ACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGGTTGATAATGTTTCAAGTAATTAA
* * * *
1159635 CCTG-TTATGTTATCTTCAGATTTCTAATG-TTCTATCA-ACTTAAACTTTGGTAACATTTTAGG
66 CCTGATTATGTTATCGTCAGATTTCT-AGGACTCCATCATA-TTAAACTTTGGTAACATTTTAGG
**
1159697 CGTTACCTAACATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATTGTCAG
129 CGTTACCTAACATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCAG
* * * * * *
1159762 ATTTTTAAGGCCTCATCAGCTTAAGAAGGCGCT
194 ATTTCTAAAGCCCCATCAACTTAAAAAGGCACT
* * * *
1159795 ACCTATTACGTTACATAAGCGTTACCT-ATGTGTTATTATGGTTAATAATGTTTCCAGTAATTAA
1 ACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGGTTGATAATGTTTCAAGTAATTAA
1159859 CC-GATTATGTTA
66 CCTGATTATGTTA
1159871 AAGTTAATAT
Statistics
Matches: 265, Mismatches: 32, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
223 1 0.00
224 41 0.15
225 38 0.14
226 180 0.68
227 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (226 bp):
ACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGGTTGATAATGTTTCAAGTAATTAA
CCTGATTATGTTATCGTCAGATTTCTAGGACTCCATCATATTAAACTTTGGTAACATTTTAGGCG
TTACCTAACATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCAGAT
TTCTAAAGCCCCATCAACTTAAAAAGGCACT
Found at i:1160491 original size:2 final size:2
Alignment explanation
Indices: 1160484--1160556 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
1160474 AGTAATATTA
1160484 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
1160526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1160557 ACACTCTTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1174540 original size:103 final size:103
Alignment explanation
Indices: 1174401--1174604 Score: 255
Period size: 103 Copynumber: 2.0 Consensus size: 103
1174391 CCCGAGTGTC
* * * * * * * * *
1174401 GATACCAAAATTATATTGGATGTTTTGGAAGATACCTTAGTATTGATACTCTTCCTAAGAGTATC
1 GATAACAAAATTACATTCGATGTTTTGAAAAATACCTCAGTATCGATACCCTTACTAAGAGTATC
* *
1174466 GATACCCTACCCTCAGTATTGATACTCTCATGAGTATT
66 GATACCCTACCCTCAGTATTGATACCCCCATGAGTATT
* **
1174504 GATAACAAAATTACATTCGATGTTTTTAAAAATACCTCAGTATCGATACCCTTACTGGGAGTATC
1 GATAACAAAATTACATTCGATGTTTTGAAAAATACCTCAGTATCGATACCCTTACTAAGAGTATC
* **
1174569 GATACTCTACCCTTGGTATTGATACCCCCATGAGTA
66 GATACCCTACCCTCAGTATTGATACCCCCATGAGTA
1174605 CCGATACCGA
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (103 bp):
GATAACAAAATTACATTCGATGTTTTGAAAAATACCTCAGTATCGATACCCTTACTAAGAGTATC
GATACCCTACCCTCAGTATTGATACCCCCATGAGTATT
Found at i:1175990 original size:64 final size:65
Alignment explanation
Indices: 1175907--1176031 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 65
1175897 TGCACTAAGA
* *
1175907 GTGCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAGC-C-AGAGTGCATCGATGCATGG
1 GTGCATCAATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTA-AGTGCATCGATGCATGG
1175968 CTG
63 CTG
1175971 GTGCATCAATGCATCAAATGCATTCGATGTTTTCATAAAACTCTAAGTGCATCGATGCATG
1 GTGCATCAATGCATCAAATGCATTCGATGTTTTCATAAAACTCTAAGTGCATCGATGCATG
1176032 AAATGCATTC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
64 28 0.51
65 23 0.42
66 4 0.07
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (65 bp):
GTGCATCAATGCATCAAATGCATTCGATGTTTTCATAAAACTCTAAGTGCATCGATGCATGGCTG
Found at i:1178303 original size:13 final size:13
Alignment explanation
Indices: 1178285--1178309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1178275 AATCAAAAAC
1178285 ATCAAATTTAGAA
1 ATCAAATTTAGAA
1178298 ATCAAATTTAGA
1 ATCAAATTTAGA
1178310 TTTTCAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCAAATTTAGAA
Found at i:1178741 original size:20 final size:20
Alignment explanation
Indices: 1178716--1178768 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1178706 AACCCGATGG
1178716 ATGCATCGATGCATGGCCTT
1 ATGCATCGATGCATGGCCTT
1178736 ATGCATCGATGCATGGCCTT
1 ATGCATCGATGCATGGCCTT
*
1178756 GTGCATCGATGCA
1 ATGCATCGATGCA
1178769 CATTCAAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (20 bp):
ATGCATCGATGCATGGCCTT
Found at i:1184101 original size:20 final size:20
Alignment explanation
Indices: 1184076--1184189 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
1184066 AATTGGGAAA
*
1184076 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1184096 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
1184116 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
1184137 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1184157 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
1184177 TTCGCAACGCGAT
1 ATCGCAACGCGAT
1184190 TTACATAACG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1184138 original size:61 final size:61
Alignment explanation
Indices: 1184073--1184189 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
1184063 GCAAATTGGG
* * * * *
1184073 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
1184134 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
1184190 TTACATAACG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:1184769 original size:19 final size:19
Alignment explanation
Indices: 1184745--1184789 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1184735 GCAACAAGAG
*
1184745 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
1184764 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
1184783 AATCGCA
1 AATCGCA
1184790 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:1184807 original size:19 final size:19
Alignment explanation
Indices: 1184785--1184963 Score: 136
Period size: 19 Copynumber: 10.1 Consensus size: 19
1184775 GAAACCAAAA
*
1184785 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1184804 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1184818 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1184837 TCGTGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1184856 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1184870 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
1184889 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1184903 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
1184922 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
1184942 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1184962 TC
1 TC
1184964 AACCAAAAGA
Statistics
Matches: 127, Mismatches: 16, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
14 30 0.24
16 7 0.06
17 8 0.06
19 50 0.39
20 31 0.24
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1184868 original size:52 final size:52
Alignment explanation
Indices: 1184785--1184901 Score: 198
Period size: 52 Copynumber: 2.2 Consensus size: 52
1184775 GAAACCAAAA
* **
1184785 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
*
1184837 TCGTGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1184889 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1184902 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
Found at i:1184878 original size:14 final size:14
Alignment explanation
Indices: 1184859--1184914 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
1184849 TTTCATTTCG
1184859 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1184873 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
1184892 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1184906 CGTTGCGAT
1 CGTTGCGAT
1184915 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1184878 original size:33 final size:33
Alignment explanation
Indices: 1184841--1184938 Score: 169
Period size: 33 Copynumber: 2.9 Consensus size: 33
1184831 TTCATTTCGT
**
1184841 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
1 GTTGCGATAGTCATTTCGCGTTGCGATTCTCTC
1184874 GTTGCGATAGTCATTTCGCGTTGCGATTCTCTC
1 GTTGCGATAGTCATTTCGCGTTGCGATTCTCTC
1184907 GTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 GTTGCGATAGTCATTT-CGCGTTGCGATTCTC
1184939 ATTATCTCGT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 47 0.76
34 15 0.24
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.41
Consensus pattern (33 bp):
GTTGCGATAGTCATTTCGCGTTGCGATTCTCTC
Found at i:1187132 original size:42 final size:42
Alignment explanation
Indices: 1187056--1187258 Score: 194
Period size: 42 Copynumber: 4.8 Consensus size: 42
1187046 GACTCGCCTG
* * * * * * *
1187056 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* *
1187098 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCATTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * * * * * *
1187140 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
1187182 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
1187224 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
1187259 CCCGATTCAC
Statistics
Matches: 130, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
41 4 0.03
42 124 0.95
43 2 0.02
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:1187216 original size:21 final size:21
Alignment explanation
Indices: 1187192--1187258 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1187182 TCATTCCTCG
1187192 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1187213 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1187234 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1187255 AGAG
1 AGAG
1187259 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:1187237 original size:84 final size:84
Alignment explanation
Indices: 1187053--1187228 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
1187043 CCCGACTCGC
1187053 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1187118 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
*
1187137 TTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1187202 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
1187221 CTGTCATC
1 CTGTCATC
1187229 GTTGAAGAGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:1187258 original size:84 final size:84
Alignment explanation
Indices: 1187053--1187258 Score: 288
Period size: 84 Copynumber: 2.5 Consensus size: 84
1187043 CCCGACTCGC
* * * *
1187053 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1187118 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * * * *
1187137 TTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1187202 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** *
1187221 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
1187259 CCCGATTCAC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 108 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:1188635 original size:14 final size:14
Alignment explanation
Indices: 1188616--1188651 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1188606 ATTGTTTAAT
1188616 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1188630 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1188644 TGATTTGT
1 TGATTTGT
1188652 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1188834 original size:19 final size:19
Alignment explanation
Indices: 1188812--1188962 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
1188802 CGAAATTAAA
1188812 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1188831 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* * *
1188846 -CCTCGTTGCAATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
1188864 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
1188878 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1188897 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1188912 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
1188930 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
1188949 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
1188963 AGACATTAAG
Statistics
Matches: 93, Mismatches: 23, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 27 0.29
16 6 0.06
17 6 0.06
19 44 0.47
20 10 0.11
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1188860 original size:33 final size:32
Alignment explanation
Indices: 1188816--1188942 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
1188806 ATTAAATTCG
1188816 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
1188849 CGTTGCAATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
1188882 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
1188915 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1188943 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:1188899 original size:66 final size:66
Alignment explanation
Indices: 1188809--1188941 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
1188799 ACGCGAAATT
*
1188809 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
1188874 G
66 G
* *
1188875 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
1188940 G
66 G
1188941 A
1 A
1188942 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCAATTTTCATTTCGCATTGC
G
Found at i:1191251 original size:12 final size:12
Alignment explanation
Indices: 1191234--1191270 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
1191224 TCTTCGGGGA
1191234 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1191246 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1191258 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1191270 C
1 C
1191271 AGGATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1191479 original size:24 final size:24
Alignment explanation
Indices: 1191445--1191498 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1191435 CTGAAACATC
*
1191445 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
1191469 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1191493 ATCAAA
1 ATCAAA
1191499 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1192308 original size:20 final size:21
Alignment explanation
Indices: 1192283--1192334 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1192273 TTTTCCTAAT
*
1192283 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
1192303 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1192324 TCGCAATGCGA
1 TCGCAATGCGA
1192335 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1192408 original size:20 final size:20
Alignment explanation
Indices: 1192319--1192410 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
1192309 TGCGAATTTG
* *
1192319 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
1192339 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
1192359 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
1192380 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
1192400 GAAAATCGCAA
1 GAAAATCGCAA
1192411 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:1192719 original size:20 final size:20
Alignment explanation
Indices: 1192624--1192711 Score: 106
Period size: 20 Copynumber: 4.4 Consensus size: 20
1192614 CAACGGGGAA
1192624 ATCGCAACGCGAAAATGGAT
1 ATCGCAACGCGAAAATGGAT
*
1192644 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGAT
** * *
1192664 ATCGCAATTC-AAAATGAAAA
1 ATCGCAACGCGAAAATG-GAT
*
1192684 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGAT
1192704 ATCGCAAC
1 ATCGCAAC
1192712 TAGAAAATCG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
19 6 0.11
20 43 0.78
21 6 0.11
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGAT
Found at i:1192738 original size:60 final size:60
Alignment explanation
Indices: 1192622--1192738 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
1192612 CACAACGGGG
* * * *
1192622 AAATCGCAACGCGAAAATGGATATCGCAACGCGAAAATGGCTATCGCAATTCAAAATGAA
1 AAATCGCAACGCGAAAATGGATATCGCAACGAGAAAATCGCAATCGCAAATCAAAATGAA
* * *
1192682 AAATCGCAACGCGAAAATGGCTATCGCAACTAGAAAATCGCAAT-GCGAAATGAAAAT
1 AAATCGCAACGCGAAAATGGATATCGCAACGAGAAAATCGCAATCGC-AAATCAAAAT
1192739 CGCATTGCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 2 0.04
60 47 0.96
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.16
Consensus pattern (60 bp):
AAATCGCAACGCGAAAATGGATATCGCAACGAGAAAATCGCAATCGCAAATCAAAATGAA
Found at i:1192779 original size:19 final size:19
Alignment explanation
Indices: 1192738--1192805 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
1192728 GAAATGAAAA
1192738 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
1192754 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
1192771 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1192790 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
1192806 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
14 10 0.22
16 3 0.07
17 3 0.07
19 29 0.64
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1192961 original size:14 final size:14
Alignment explanation
Indices: 1192942--1192978 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1192932 CATCAATTAA
1192942 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1192956 ACAAATCATCTTTT
1 ACAAATCAACATTT
1192970 ACAAATCAA
1 ACAAATCAA
1192979 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1194871 original size:20 final size:19
Alignment explanation
Indices: 1194848--1194915 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
1194838 GAAACTTAAA
1194848 ATCGCAACGCGTAAATGACT
1 ATCGCAACGCG-AAATGACT
*
1194868 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
1194888 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
1194907 ATCGCAACG
1 ATCGCAACG
1194916 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1194923 original size:14 final size:14
Alignment explanation
Indices: 1194904--1194960 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1194894 ATGCGAAATG
1194904 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1194918 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
1194937 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1194951 AAAATCGCAA
1 AAAATCGCAA
1194961 TACGAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.51, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1194930 original size:33 final size:33
Alignment explanation
Indices: 1194888--1194980 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
1194878 GGAAATGGCT
1194888 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1194921 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1194954 ATCGCAATACGAAATG-AAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1194981 CGAAACACAA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 11 0.19
33 48 0.81
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1195033 original size:14 final size:14
Alignment explanation
Indices: 1195014--1195071 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
1195004 TTTCATTTCG
1195014 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1195028 CGTTGCGATTTCATTTCT
1 CGTTGCGA--T--TTTGT
*
1195046 CATTGCGATTTTGT
1 CGTTGCGATTTTGT
1195060 CGTTGCGATTTT
1 CGTTGCGATTTT
1195072 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 23 0.64
16 2 0.06
18 11 0.31
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1195083 original size:33 final size:33
Alignment explanation
Indices: 1194997--1195087 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
1194987 ACAAATCGCA
*
1194997 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
1195030 TTGCGA-TTTCATTTCTCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1195062 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1195088 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1195124 original size:20 final size:20
Alignment explanation
Indices: 1195072--1195115 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1195062 TTGCGATTTT
*
1195072 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
1195091 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
1195111 CATTT
1 CATTT
1195116 TCGTGTTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:1195634 original size:18 final size:18
Alignment explanation
Indices: 1195608--1195652 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1195598 GTCGATCAGA
*
1195608 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
1195626 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
1195644 TGATGGCTC
1 TGATGGCTC
1195653 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:1197020 original size:20 final size:20
Alignment explanation
Indices: 1196972--1197030 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1196962 AATAGTTTCT
** *
1196972 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
1196992 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
1197012 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
1197031 AGAGAATCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:1197320 original size:22 final size:22
Alignment explanation
Indices: 1197293--1197336 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1197283 GATGGAGATA
*
1197293 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
*
1197315 GACGGATTTCATCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
1197337 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:1197610 original size:20 final size:20
Alignment explanation
Indices: 1197504--1197638 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
1197494 CGCTTTGAAA
*
1197504 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
1197525 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
1197545 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
1197565 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
1197586 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
1197606 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1197626 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1197639 TTTCCCAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.05
20 66 0.69
21 23 0.24
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1197610 original size:61 final size:61
Alignment explanation
Indices: 1197504--1197641 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 61
1197494 CGCTTTGAAA
* * * *
1197504 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
1197565 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
1197626 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
1197642 CCCAATTCGC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:1197657 original size:61 final size:61
Alignment explanation
Indices: 1197504--1197659 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
1197494 CGCTTTGAAA
* ** * * * *
1197504 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
* * ** * * * *
1197565 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
1197626 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
1197660 TTACTTATTC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 77 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:1198302 original size:64 final size:63
Alignment explanation
Indices: 1198225--1198431 Score: 206
Period size: 64 Copynumber: 3.2 Consensus size: 63
1198215 CAGAGAGTCA
*
1198225 GTGCATCGATGCATGAAATGTATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGG-TG
* * * *
1198289 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAA-AACTCTGAGTGC-TCGATGCATAGTA
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATAAC-CAGAGTGCATCGATGCATGGT-
*
1198352 T
63 G
* ** * * *
1198353 ATGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCAATGCTTGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATA-ACCA-GAGTGCATCGATGCATGG--
1198416 TG
62 TG
1198418 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1198432 CACTTTGAAA
Statistics
Matches: 116, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
62 4 0.03
63 7 0.06
64 77 0.66
65 27 0.23
66 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAACCAGAGTGCATCGATGCATGGTG
Found at i:1209263 original size:26 final size:23
Alignment explanation
Indices: 1209213--1209265 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
1209203 ACGTAGCTAA
* *
1209213 ACATTAAAAAAATAATAAGTCAT
1 ACATTAAAAAAATAAAAAGACAT
1209236 ACATTAAAAAAATATTAAAAGACTAT
1 ACATTAAAAAAATA--AAAAGAC-AT
1209262 ACAT
1 ACAT
1209266 AAATGCGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.56
25 5 0.20
26 6 0.24
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.26
Consensus pattern (23 bp):
ACATTAAAAAAATAAAAAGACAT
Found at i:1213767 original size:198 final size:198
Alignment explanation
Indices: 1213429--1213826 Score: 796
Period size: 198 Copynumber: 2.0 Consensus size: 198
1213419 TTTTTTTAAA
1213429 AACGTTTGGTTGATCGGACACCATCTTACATGATCTACGTTTTACCATGTATGCATCGGATTCGG
1 AACGTTTGGTTGATCGGACACCATCTTACATGATCTACGTTTTACCATGTATGCATCGGATTCGG
1213494 GAGTCGGTTACAGTCAAGAAAGGATTAACACCCTTGAACTGCCCTTTCGGTTTTTAATTTCTCGG
66 GAGTCGGTTACAGTCAAGAAAGGATTAACACCCTTGAACTGCCCTTTCGGTTTTTAATTTCTCGG
1213559 TTGTCTTAATTGTGAAAATTAAAGGTTAAATTAAAAATTTAAAAGTTCGATCCGAGATACTTACC
131 TTGTCTTAATTGTGAAAATTAAAGGTTAAATTAAAAATTTAAAAGTTCGATCCGAGATACTTACC
1213624 TTT
196 TTT
1213627 AACGTTTGGTTGATCGGACACCATCTTACATGATCTACGTTTTACCATGTATGCATCGGATTCGG
1 AACGTTTGGTTGATCGGACACCATCTTACATGATCTACGTTTTACCATGTATGCATCGGATTCGG
1213692 GAGTCGGTTACAGTCAAGAAAGGATTAACACCCTTGAACTGCCCTTTCGGTTTTTAATTTCTCGG
66 GAGTCGGTTACAGTCAAGAAAGGATTAACACCCTTGAACTGCCCTTTCGGTTTTTAATTTCTCGG
1213757 TTGTCTTAATTGTGAAAATTAAAGGTTAAATTAAAAATTTAAAAGTTCGATCCGAGATACTTACC
131 TTGTCTTAATTGTGAAAATTAAAGGTTAAATTAAAAATTTAAAAGTTCGATCCGAGATACTTACC
1213822 TTT
196 TTT
1213825 AA
1 AA
1213827 TCTATTGAAG
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 200 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (198 bp):
AACGTTTGGTTGATCGGACACCATCTTACATGATCTACGTTTTACCATGTATGCATCGGATTCGG
GAGTCGGTTACAGTCAAGAAAGGATTAACACCCTTGAACTGCCCTTTCGGTTTTTAATTTCTCGG
TTGTCTTAATTGTGAAAATTAAAGGTTAAATTAAAAATTTAAAAGTTCGATCCGAGATACTTACC
TTT
Found at i:1227195 original size:16 final size:17
Alignment explanation
Indices: 1227172--1227209 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1227162 AAATGGTTAA
1227172 ATAA-ATAAATAA-ATT
1 ATAATATAAATAATATT
*
1227187 GTAATATAAATAATATT
1 ATAATATAAATAATATT
1227204 ATAATA
1 ATAATA
1227210 ATAACGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 3 0.16
16 8 0.42
17 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
ATAATATAAATAATATT
Found at i:1227323 original size:24 final size:26
Alignment explanation
Indices: 1227290--1227338 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
1227280 TTAAATATTA
*
1227290 AAAAAATATA-TAT-TATATGTTTTC
1 AAAAAATATATTATATATACGTTTTC
*
1227314 AAAAACTATATTATATATACGTTTT
1 AAAAAATATATTATATATACGTTTT
1227339 TTAAAACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 3 0.14
26 9 0.43
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
AAAAAATATATTATATATACGTTTTC
Found at i:1227403 original size:72 final size:72
Alignment explanation
Indices: 1227315--1227511 Score: 272
Period size: 72 Copynumber: 2.7 Consensus size: 72
1227305 TATGTTTTCA
*
1227315 AAAACTATAT-TATATATACGTTTTTTAAAACGTTTTCAAAACCATATATTATACG-TTTTCAAA
1 AAAACTATATAT-TATATACG-TTTTTAAAATGTTTTCAAAACCATATATTATACGTTTTTCAAA
1227378 AATATCTTC
64 AATATCTTC
* * *
1227387 AAATCTATATATTATATACATTTTTAAAATGTTTTCAAAACCATATATTATACGTTTTTTAAAAA
1 AAAACTATATATTATATACGTTTTTAAAATGTTTTCAAAACCATATATTATACGTTTTTCAAAAA
* *
1227452 TGTTTTC
66 TATCTTC
* * *
1227459 AAAACTATTTATTATATACGTTTTTAAAATATTTTCCAAAACTATATATTATA
1 AAAACTATATATTATATACGTTTTTAAAATGTTTT-CAAAACCATATATTATA
1227512 TTATTTAGTG
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
71 33 0.30
72 61 0.55
73 17 0.15
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.45
Consensus pattern (72 bp):
AAAACTATATATTATATACGTTTTTAAAATGTTTTCAAAACCATATATTATACGTTTTTCAAAAA
TATCTTC
Found at i:1227424 original size:36 final size:36
Alignment explanation
Indices: 1227306--1227512 Score: 226
Period size: 36 Copynumber: 5.7 Consensus size: 36
1227296 TATATATTAT
1227306 ATGTTTTCAAAAACTATAT-TATATATACGTTTTTTAAA
1 ATGTTTTC-AAAACTATATAT-TATATACG-TTTTTAAA
* * *
1227344 ACGTTTTCAAAACCATATA-T-TATACGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATACGTTTT-TAAA
* * * *
1227379 ATATCTTCAAATCTATATATTATATACATTTTTAAA
1 ATGTTTTCAAAACTATATATTATATACGTTTTTAAA
*
1227415 ATGTTTTCAAAACCATATA-T-TATACGTTTTTTAAAA
1 ATGTTTTCAAAACTATATATTATATACG-TTTTT-AAA
*
1227451 ATGTTTTCAAAACTATTTATTATATACGTTTTTAAA
1 ATGTTTTCAAAACTATATATTATATACGTTTTTAAA
*
1227487 ATATTTTCCAAAACTATATATTATAT
1 ATGTTTT-CAAAACTATATATTATAT
1227513 TATTTAGTGT
Statistics
Matches: 141, Mismatches: 19, Indels: 19
0.79 0.11 0.11
Matches are distributed among these distances:
34 9 0.06
35 29 0.21
36 49 0.35
37 41 0.29
38 13 0.09
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (36 bp):
ATGTTTTCAAAACTATATATTATATACGTTTTTAAA
Found at i:1228421 original size:2 final size:2
Alignment explanation
Indices: 1228414--1228442 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1228404 GCATGTTTGT
1228414 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1228443 CATGTCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1231848 original size:16 final size:16
Alignment explanation
Indices: 1231829--1231872 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
1231819 ATTTTGAAAA
1231829 AACCGGTTTGGATCCT
1 AACCGGTTTGGATCCT
1231845 AACCGGTTTGGATCCT
1 AACCGGTTTGGATCCT
1231861 AACCGGTTTGGA
1 AACCGGTTTGGA
1231873 GGGTCGGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (16 bp):
AACCGGTTTGGATCCT
Found at i:1232371 original size:32 final size:32
Alignment explanation
Indices: 1232335--1232411 Score: 127
Period size: 33 Copynumber: 2.4 Consensus size: 32
1232325 ACAAAGTTTA
*
1232335 CGATAATTGAAATACTTAAATACTTCCAAGTT
1 CGATAATTGAAATACTTAAAAACTTCCAAGTT
*
1232367 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGAT-AATTGAAATACTTAAAAACTTCCAAGTT
1232400 CGATAATTGAAA
1 CGATAATTGAAA
1232412 CAGAGTTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 11 0.27
33 30 0.73
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (32 bp):
CGATAATTGAAATACTTAAAAACTTCCAAGTT
Found at i:1232424 original size:21 final size:21
Alignment explanation
Indices: 1232400--1232441 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1232390 CTTCCAAGTT
*
1232400 CGATAATTGAAACAGAGTTTA
1 CGATAATTGAAACAAAGTTTA
1232421 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
1232442 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:1240008 original size:30 final size:32
Alignment explanation
Indices: 1239936--1240008 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
1239926 AAATCTAATC
* *
1239936 GATCTGATA-TTAACTCGACCAAAAAATCAATT
1 GATCTGATATTTAACTCGAACAAAAAA-CAACT
* *
1239968 GATTTGATATTTATC-CGAACAAAAAA-AACT
1 GATCTGATATTTAACTCGAACAAAAAACAACT
1239998 GATCTGATATT
1 GATCTGATATT
1240009 CACCTAACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 13 0.37
32 18 0.51
33 4 0.11
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (32 bp):
GATCTGATATTTAACTCGAACAAAAAACAACT
Found at i:1247452 original size:39 final size:34
Alignment explanation
Indices: 1247375--1247461 Score: 142
Period size: 34 Copynumber: 2.6 Consensus size: 34
1247365 CTTGTTTTGT
*
1247375 TCGGGTCGGGTCTCGAGTGGAAGATTTTTTGATC
1 TCGGGTCGGGTCTCGAGTGGAAGATTTCTTGATC
*
1247409 TCGGGTCGGGTCTCGAGTGGAAGGTTTCTTGATC
1 TCGGGTCGGGTCTCGAGTGGAAGATTTCTTGATC
1247443 TCGGGTCGGG--TCGAGTGGA
1 TCGGGTCGGGTCTCGAGTGGA
1247462 CAAAAAATCC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
32 9 0.18
34 42 0.82
ACGTcount: A:0.13, C:0.16, G:0.40, T:0.31
Consensus pattern (34 bp):
TCGGGTCGGGTCTCGAGTGGAAGATTTCTTGATC
Found at i:1250603 original size:23 final size:23
Alignment explanation
Indices: 1250573--1250645 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1250563 ATACTTTACA
*
1250573 ATATAAACACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
1250596 ATATAAACGCTATCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
1250619 ATATAAGCGTTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
1250642 ATAT
1 ATAT
1250646 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:1251089 original size:489 final size:489
Alignment explanation
Indices: 1250176--1252049 Score: 3384
Period size: 489 Copynumber: 3.8 Consensus size: 489
1250166 TTATAATATG
* *
1250176 TTGAAAGTGTCTATACTTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
* * *
1250241 TTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACTTATAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
1250305 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAAT-TTA--T--AATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
*
1250365 TAACCAAAGATAATAATAAATATGTAATATATATGTTTTTTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
1250430 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
1250495 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* *
1250560 TAGATACTTTACAATATAAACACTACCTATTACATTATATAAACGCTATCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
* *
1250625 GCGTTACCTATTACATTATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
* *
1250660 TTGAAAGTGTCCATACTTTTTATAAAAATGATCTATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
1250725 TCAATTTTTTTAATAGTGTTTCATATTTTCTACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
1250790 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
1250855 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
1250920 CAGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
1250985 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
1251050 AGATACTTTACAATATAAGCACTACATATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
1251115 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
1251149 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
1251214 TCAATTTTTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
*
1251279 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAAATTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
*
1251344 AACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
1251409 CCGCAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
1251474 AAAAGATAACCTTAAATTAATGTTTTGCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
1251539 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
1251604 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
1251638 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
*
1251703 TTCAACTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
1251768 ACAAAAAAAATATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAAT
129 AC-AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAAT
*
1251833 ATTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTGTTTTTAATTTAATAATAATAT
193 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAT
1251898 ATACCGTAACGTAAAAAAATAAATCATTAGACGCCTAT-ATATACTAAATTAATATCTTAAAACT
258 ATACCGTAACGT-AAAAAATAAATCATTAGACGCCTATAAT-TACTAAATTAATATCTTAAAACT
*
1251962 CACACAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
321 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
1252027 AGGATAGATACTTTACAATATAA
386 AGGATAGATACTTTACAATATAA
1252050 CATGTAAAAA
Statistics
Matches: 1341, Mismatches: 38, Indels: 13
0.96 0.03 0.01
Matches are distributed among these distances:
483 51 0.04
484 106 0.08
485 3 0.00
487 1 0.00
489 822 0.61
490 31 0.02
491 58 0.04
492 135 0.10
493 134 0.10
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:1251097 original size:23 final size:23
Alignment explanation
Indices: 1251062--1251134 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1251052 ATACTTTACA
* *
1251062 ATATAAGCACTACATATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1251085 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1251108 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1251131 ATAT
1 ATAT
1251135 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1251586 original size:23 final size:23
Alignment explanation
Indices: 1251551--1251623 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1251541 ATACTTTACA
*
1251551 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1251574 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1251597 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1251620 ATAT
1 ATAT
1251624 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1257638 original size:22 final size:24
Alignment explanation
Indices: 1257599--1257647 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
1257589 TAATTTAAAT
* *
1257599 ATATATTTTGATTCAACTAATTTA
1 ATATATTATGATTCAACTAATTAA
1257623 ATATATTAT-ATT-AACTAATTAA
1 ATATATTATGATTCAACTAATTAA
1257645 ATA
1 ATA
1257648 ATGCTTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 3 0.13
24 8 0.35
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (24 bp):
ATATATTATGATTCAACTAATTAA
Found at i:1258970 original size:29 final size:29
Alignment explanation
Indices: 1258938--1259002 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
1258928 AAAAAATCGG
1258938 TTAATTTGATTCGATTAATAATTTTCAAA
1 TTAATTTGATTCGATTAATAATTTTCAAA
* * * *
1258967 TTAATTCGGTTTGGTTAATAATTTTCAAA
1 TTAATTTGATTCGATTAATAATTTTCAAA
*
1258996 TAAATTT
1 TTAATTT
1259003 TGGTTCGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.49
Consensus pattern (29 bp):
TTAATTTGATTCGATTAATAATTTTCAAA
Found at i:1259121 original size:29 final size:29
Alignment explanation
Indices: 1259077--1259140 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
1259067 AAAAAATCAG
*
1259077 TAAATTCGTTTCGGTTAATAATTTTTAAA
1 TAAATTCGTTTCGGTTAATAATTTTCAAA
*
1259106 TTAATTCAGTTT-GGTTAATAATTTTCAAA
1 TAAATTC-GTTTCGGTTAATAATTTTCAAA
1259135 TAAATT
1 TAAATT
1259141 TTGGTTCGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (29 bp):
TAAATTCGTTTCGGTTAATAATTTTCAAA
Found at i:1259126 original size:139 final size:136
Alignment explanation
Indices: 1258809--1259210 Score: 499
Period size: 139 Copynumber: 3.0 Consensus size: 136
1258799 AAATTTGATT
* * *
1258809 AATTCGGTTCGATTAATAATTTTCAAATTAA-TC----CGGTTAATAATTTTCAAATAAATTTTA
1 AATTCGATTCGATTAATAATTTTCAAATTAATTCAGTTTGGTTAATAATTTTCAAATAAATTTTG
* * * * * *
1258869 GTTCGATTAACCGAACCGAATTATCCAATTTTTGCTTTGATTAATTCGATTTATAATTTAAAAAA
66 GTTCGATTAACCGAACCGAATTAACAAATTTTTGCTTCGATTAATTCGGTTAATATTTTAAAAAA
* *
1258934 TCGGTT
131 TCAGTA
* *
1258940 AATTTGATTCGATTAATAATTTTCAAATTAATTCGGTTTGGTTAATAATTTTCAAATAAATTTTG
1 AATTCGATTCGATTAATAATTTTCAAATTAATTCAGTTTGGTTAATAATTTTCAAATAAATTTTG
* * * *
1259005 GTTCGGTTAACCAAACTGAATTAACTAAATTTTTGCTTGGATTAATTCGGTTAATACTTTTAAAA
66 GTTCGATTAACCGAACCGAATTAAC-AAATTTTTGCTTCGATTAATTCGGTTAATA-TTTT-AAA
1259070 AAATCAGTA
128 AAATCAGTA
* * *
1259079 AATTCGTTTCGGTTAATAATTTTTAAATTAATTCAGTTTGGTTAATAATTTTCAAATAAATTTTG
1 AATTCGATTCGATTAATAATTTTCAAATTAATTCAGTTTGGTTAATAATTTTCAAATAAATTTTG
* * ** *
1259144 GTTCGATTAACCGAACCGAATTAACCGAATTTTTTCTTCGATTAATTATGTTAATAATTTTCAAA
66 GTTCGATTAACCGAACCGAATTAA-CAAATTTTTGCTTCGATTAATTCGGTTAAT-ATTTTAAAA
1259209 AA
129 AA
1259211 GGTTTCCGTT
Statistics
Matches: 232, Mismatches: 29, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
131 29 0.12
132 2 0.01
136 46 0.20
137 26 0.11
138 8 0.03
139 119 0.51
140 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (136 bp):
AATTCGATTCGATTAATAATTTTCAAATTAATTCAGTTTGGTTAATAATTTTCAAATAAATTTTG
GTTCGATTAACCGAACCGAATTAACAAATTTTTGCTTCGATTAATTCGGTTAATATTTTAAAAAA
TCAGTA
Found at i:1259616 original size:35 final size:35
Alignment explanation
Indices: 1259577--1259652 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
1259567 AAAACAATCC
* *
1259577 TCAATTTCATTCTAAACTCC-AATTTCCAAAGTAAT
1 TCAATTTCATTCTAAAC-CCTAAATTCCAAAATAAT
1259612 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1259647 TCAATT
1 TCAATT
1259653 AAATTCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 2 0.05
35 36 0.95
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:1260196 original size:130 final size:130
Alignment explanation
Indices: 1260050--1260297 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
1260040 TATTTATATA
* **
1260050 ATCAATTTGGTCCTAAACTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAACTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
1260115 TTAGCACATGATCATGAAACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGAAACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
1260180 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAACTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
1260245 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGAAACATGTCATTGGTGACACATGTCACCACCTAATTA
1260298 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAACTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGAAACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:1260328 original size:130 final size:129
Alignment explanation
Indices: 1260068--1260328 Score: 301
Period size: 130 Copynumber: 2.0 Consensus size: 129
1260058 GGTCCTAAAC
* ** *
1260068 TAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCATGAA
1 TAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCATGAA
* *** * * **** *
1260133 ACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCTAAAT
66 ACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CAAAAT
*
1260198 TAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCATGAT
1 TAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCATGAA
* * *
1260263 ATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT-AAA
66 ACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGTCAAA
1260326 AT
128 AT
1260328 T
1 T
1260329 TGGGTCTTGG
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 96 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
TAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCATGAA
ACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCAAAAT
Found at i:1260760 original size:16 final size:18
Alignment explanation
Indices: 1260739--1260772 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1260729 ATTTCTTATT
1260739 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1260755 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1260773 TTAATATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1260850 original size:22 final size:21
Alignment explanation
Indices: 1260825--1260884 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
1260815 AATATACATT
* *
1260825 TATATAAATATATTTTTATTCA
1 TATATAAA-ATATTTTGATTAA
*
1260847 TATATTGAAATATTTTGATTAA
1 TATA-TAAAATATTTTGATTAA
*
1260869 AATATAAACATATTTT
1 TATATAAA-ATATTTT
1260885 AAATACTAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 3 0.10
22 25 0.81
23 3 0.10
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TATATAAAATATTTTGATTAA
Found at i:1261323 original size:176 final size:177
Alignment explanation
Indices: 1261028--1261376 Score: 691
Period size: 176 Copynumber: 2.0 Consensus size: 177
1261018 TTTGCAAGTT
1261028 TTAAAAGTTGGGGACCTAAATTCAAGTGCCTGAAAAGTTCAATGATCGTTTATATAATTTACCCT
1 TTAAAAGTTGGGGACCTAAATTCAAGTGCCTGAAAAGTTCAATGATCGTTTATATAATTTACCCT
1261093 AATTTTCTAACAGTGATTTAAGTTGGGGGACCATATTGCAAACGAAATAAATGTTGGGGGATTGT
66 AATTTTCTAACAGTGATTTAAGTTGGGGGACCATATTGCAAACGAAATAAATGTTGGGGGATTGT
1261158 ATTGCAAGTTTTAAAAGTTGGGGGACCTAAATACAAGCTTTAGTTCA
131 ATTGCAAGTTTTAAAAGTTGGGGGACCTAAATACAAGCTTTAGTTCA
1261205 TTAAAAGTTGGGGACCTAAATTCAAGTGCCTGAAAAGTTC-ATGATCGTTTATATAATTTACCCT
1 TTAAAAGTTGGGGACCTAAATTCAAGTGCCTGAAAAGTTCAATGATCGTTTATATAATTTACCCT
1261269 AATTTTCTAACAGTGATTTAAGTTGGGGGACCATATTGCAAACGAAATAAATGTTGGGGGATTGT
66 AATTTTCTAACAGTGATTTAAGTTGGGGGACCATATTGCAAACGAAATAAATGTTGGGGGATTGT
1261334 ATTGCAAGTTTTAAAAGTTGGGGGACCTAAATACAAGCTTTAG
131 ATTGCAAGTTTTAAAAGTTGGGGGACCTAAATACAAGCTTTAG
1261377 AAATGTTCAG
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
176 132 0.77
177 40 0.23
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (177 bp):
TTAAAAGTTGGGGACCTAAATTCAAGTGCCTGAAAAGTTCAATGATCGTTTATATAATTTACCCT
AATTTTCTAACAGTGATTTAAGTTGGGGGACCATATTGCAAACGAAATAAATGTTGGGGGATTGT
ATTGCAAGTTTTAAAAGTTGGGGGACCTAAATACAAGCTTTAGTTCA
Found at i:1261897 original size:30 final size:29
Alignment explanation
Indices: 1261860--1261927 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 29
1261850 AAATTAACGG
*
1261860 TCGGTGGTTTGATTGAATCAATTAAATAGT
1 TCGGTGGTCTGATTGAATCAATTAAA-AGT
* *
1261890 TGGGTGGTCTGATTGATTCAATTAAAAGT
1 TCGGTGGTCTGATTGAATCAATTAAAAGT
1261919 TCGGTGGTC
1 TCGGTGGTC
1261928 ACATTGATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.32
30 23 0.68
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.38
Consensus pattern (29 bp):
TCGGTGGTCTGATTGAATCAATTAAAAGT
Found at i:1261933 original size:29 final size:30
Alignment explanation
Indices: 1261871--1261936 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
1261861 CGGTGGTTTG
* * **
1261871 ATTGAATCAATTAAATAGTTGGGTGGTCTG
1 ATTGATTCAATTAAATAGTTCGGTGGTCAC
1261901 ATTGATTCAATTAAA-AGTTCGGTGGTCAC
1 ATTGATTCAATTAAATAGTTCGGTGGTCAC
1261930 ATTGATT
1 ATTGATT
1261937 TTTTACCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.56
30 14 0.44
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (30 bp):
ATTGATTCAATTAAATAGTTCGGTGGTCAC
Found at i:1262370 original size:48 final size:53
Alignment explanation
Indices: 1262318--1262436 Score: 131
Period size: 60 Copynumber: 2.2 Consensus size: 53
1262308 TTTTGTGTTA
1262318 CAATAA-AATGAA-AA-TAG-G-GAAAGCCTCAAATTCCAGCAATGGTGAGAG
1 CAATAACAATGAACAAGTAGTGAGAAAGCCTCAAATTCCAGCAATGGTGAGAG
*
1262366 CAATAACAATGGAACCAATGTAGTTTTGCATAAAGCCTCAAATTCCAGCAATGGTGAGAG
1 CAATAACAAT-GAA-CAA-GTAG---TG-AGAAAGCCTCAAATTCCAGCAATGGTGAGAG
1262426 CAATAACAATG
1 CAATAACAATG
1262437 GAACCAATGT
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
48 6 0.10
49 3 0.05
50 3 0.05
52 2 0.03
54 3 0.05
58 1 0.02
59 1 0.02
60 39 0.67
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (53 bp):
CAATAACAATGAACAAGTAGTGAGAAAGCCTCAAATTCCAGCAATGGTGAGAG
Found at i:1262430 original size:60 final size:60
Alignment explanation
Indices: 1262337--1262456 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
1262327 GAAAATAGGG
1262337 AAAGCCTCAAATTCCAGCAATGGTGAGAGCAATAACAATGGAACCAATGTAGTTTTGCAT
1 AAAGCCTCAAATTCCAGCAATGGTGAGAGCAATAACAATGGAACCAATGTAGTTTTGCAT
1262397 AAAGCCTCAAATTCCAGCAATGGTGAGAGCAATAACAATGGAACCAATGTAGTTTTGCAT
1 AAAGCCTCAAATTCCAGCAATGGTGAGAGCAATAACAATGGAACCAATGTAGTTTTGCAT
1262457 GTTTATGATC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (60 bp):
AAAGCCTCAAATTCCAGCAATGGTGAGAGCAATAACAATGGAACCAATGTAGTTTTGCAT
Done.