Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 406 of 410
Found at i:122355170 original size:27 final size:27
Alignment explanation
Indices: 122355140--122355222 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
122355130 TGAGGGAGAT
122355140 GGTGGAGGTGGAGACTTGTAAACATAA
1 GGTGGAGGTGGAGACTTGTAAACATAA
* * * *
122355167 GGTGGAGGAGGTGA--TG--GAGAT--
1 GGTGGAGGTGGAGACTTGTAAACATAA
122355188 GGTGGAGGTGGAGACTTGTAAACATAA
1 GGTGGAGGTGGAGACTTGTAAACATAA
*
122355215 GGGGGAGG
1 GGTGGAGG
122355223 AGGTGAAGGA
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
21 12 0.29
23 5 0.12
25 5 0.12
27 19 0.46
ACGTcount: A:0.29, C:0.05, G:0.47, T:0.19
Consensus pattern (27 bp):
GGTGGAGGTGGAGACTTGTAAACATAA
Found at i:122355267 original size:27 final size:26
Alignment explanation
Indices: 122355236--122355369 Score: 81
Period size: 27 Copynumber: 5.4 Consensus size: 26
122355226 TGAAGGAGAT
122355236 GGTGGAGGTGGGGACTTGTAGACATA
1 GGTGGAGGTGGGGACTTGTAGACATA
* * *
122355262 GGGTGGAGGTGGTGA---G-GGAGAT-
1 -GGTGGAGGTGGGGACTTGTAGACATA
* *
122355284 GGTGGAGGTGGAGACTTGTAAACATAA
1 GGTGGAGGTGGGGACTTGTAGACAT-A
* * * *
122355311 GGAGGAGGAGGTGA-ATG-AG--AT-
1 GGTGGAGGTGGGGACTTGTAGACATA
*
122355332 GGTGGAGGTGGGGACTTGTACACATAA
1 GGTGGAGGTGGGGACTTGTAGACAT-A
122355359 GGTGGAGGTGG
1 GGTGGAGGTGG
122355370 TGAGGGAGAT
Statistics
Matches: 78, Mismatches: 17, Indels: 24
0.66 0.14 0.20
Matches are distributed among these distances:
21 24 0.31
22 2 0.03
23 7 0.09
24 2 0.03
25 6 0.08
26 2 0.03
27 35 0.45
ACGTcount: A:0.25, C:0.05, G:0.49, T:0.20
Consensus pattern (26 bp):
GGTGGAGGTGGGGACTTGTAGACATA
Found at i:122355414 original size:27 final size:27
Alignment explanation
Indices: 122355384--122355462 Score: 62
Period size: 27 Copynumber: 3.1 Consensus size: 27
122355374 GGAGATGGCG
122355384 GAGGTGGAGACTTGTAGACATAGGGTA
1 GAGGTGGAGACTTGTAGACATAGGGTA
* * * * *
122355411 GAGGAGGTGA---G-GGAGAT-GGATA
1 GAGGTGGAGACTTGTAGACATAGGGTA
*
122355433 -AGGTGGAGACTTGTAGACATAGGGTG
1 GAGGTGGAGACTTGTAGACATAGGGTA
122355459 GAGG
1 GAGG
122355463 AGGTGAGGGA
Statistics
Matches: 35, Mismatches: 11, Indels: 12
0.60 0.19 0.21
Matches are distributed among these distances:
21 7 0.20
22 4 0.11
23 4 0.11
24 2 0.06
25 4 0.11
26 3 0.09
27 11 0.31
ACGTcount: A:0.29, C:0.05, G:0.47, T:0.19
Consensus pattern (27 bp):
GAGGTGGAGACTTGTAGACATAGGGTA
Found at i:122356016 original size:21 final size:21
Alignment explanation
Indices: 122355992--122356068 Score: 73
Period size: 21 Copynumber: 3.4 Consensus size: 21
122355982 AATGTAAGGA
122355992 GGAGGTGGTGAGGGAGATGGT
1 GGAGGTGGTGAGGGAGATGGT
* * *
122356013 GGAGGTGGAGACTTGTAGACATAGGGT
1 GGAGGTGGTGA---G-GGAGAT--GGT
122356040 GGAGGTGGTGAGGGAGATGGT
1 GGAGGTGGTGAGGGAGATGGT
122356061 GGAGGTGG
1 GGAGGTGG
122356069 AGATTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
21 21 0.48
23 4 0.09
24 2 0.05
25 4 0.09
27 13 0.30
ACGTcount: A:0.21, C:0.03, G:0.57, T:0.19
Consensus pattern (21 bp):
GGAGGTGGTGAGGGAGATGGT
Found at i:122356111 original size:3 final size:3
Alignment explanation
Indices: 122356085--122356128 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
122356075 GTAGACATAG
* ** *
122356085 GGT GGA GGT GGT GAA GGT GAT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
122356129 AGACCTATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.09, C:0.00, G:0.64, T:0.27
Consensus pattern (3 bp):
GGT
Found at i:122356128 original size:108 final size:108
Alignment explanation
Indices: 122356009--122356226 Score: 319
Period size: 108 Copynumber: 2.0 Consensus size: 108
122355999 GTGAGGGAGA
* * * * * *
122356009 TGGTGGAGGTGGAGACTTGTAGACATAGGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGATT
1 TGGTGGAGGTGGAGACCTATAAACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACT
* * * *
122356074 TGTAGACATAGGGTGGAGGTGGTGAAGGTGATGGTGGTGGTGG
66 TGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGG
* * *
122356117 TGGTGGTGGTGGAGACCTATAAATATAAGGAGGAGGTGGTGAGGGTGATGGTGGAGGTGGAGACT
1 TGGTGGAGGTGGAGACCTATAAACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACT
122356182 TGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGG
66 TGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGG
122356225 TG
1 TG
122356227 ACTTGTAGGC
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 97 1.00
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.23
Consensus pattern (108 bp):
TGGTGGAGGTGGAGACCTATAAACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACT
TGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGG
Found at i:122356155 original size:156 final size:156
Alignment explanation
Indices: 122355662--122356272 Score: 785
Period size: 150 Copynumber: 4.0 Consensus size: 156
122355652 AGGTGGTGAA
* * *
122355662 GGTGATGGTGGTGGTGGAGACTTATAAATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGG
1 GGTGGTGGTGGTGGTGGAGACCTATAAATATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGG
* * ** * * **
122355727 AGACTTGTAGACATAGGGTGGAAGTGGTGAGGGAGATGGTAGAGGTGGAGATTTGTAGACATGGG
66 AGACTTGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGGAGACTTGTAGACATAAG
* *
122355792 GTGGCGGTGGTGAAGGTGA------T
131 GCGACGGTGGTGAAGGTGATGGTGGT
* *
122355812 GGTGGTGGTGGTGGTGGAGACCTATAAATATAAGGAGAAGGTGGTGAGGGAGATGGTGGATGTGG
1 GGTGGTGGTGGTGGTGGAGACCTATAAATATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGG
** * *
122355877 AGACTTGTAGACATAGGGTGGAGGAGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGACATAGG
66 AGACTTGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGGAGACTTGTAGACATAAG
*
122355942 GTGGA-GGTGGTGAAGGTGA-------
131 G-CGACGGTGGTGAAGGTGATGGTGGT
* *
122355961 --TGGTGGTGGTGGT---GACTTATAAATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGG
1 GGTGGTGGTGGTGGTGGAGACCTATAAATATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGG
* ** * *
122356021 AGACTTGTAGACATAGGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGATTTGTAGACATAGG
66 AGACTTGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGGAGACTTGTAGACATAAG
*
122356086 GTGGA-GGTGGTGAAGGTGATGGTGGT
131 G-CGACGGTGGTGAAGGTGATGGTGGT
*
122356112 GGTGGTGGTGGTGGTGGAGACCTATAAATATAAGGAGGAGGTGGTGAGGGTGATGGTGGAGGTGG
1 GGTGGTGGTGGTGGTGGAGACCTATAAATATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGG
* *
122356177 AGACTTGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGGTGACTTGTAGGCATAAG
66 AGACTTGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGGAGACTTGTAGACATAAG
122356242 GCGACGGTGGTGAAGGTGATGGTGGT
131 GCGACGGTGGTGAAGGTGATGGTGGT
122356268 GGTGG
1 GGTGG
122356273 GGACTTATAA
Statistics
Matches: 416, Mismatches: 31, Indels: 22
0.89 0.07 0.05
Matches are distributed among these distances:
144 124 0.30
147 13 0.03
150 134 0.32
151 1 0.00
153 13 0.03
155 2 0.00
156 129 0.31
ACGTcount: A:0.24, C:0.04, G:0.50, T:0.23
Consensus pattern (156 bp):
GGTGGTGGTGGTGGTGGAGACCTATAAATATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGG
AGACTTGTAGACATAGGGTGGAGGAGGTGAAAGAGATGGTGGAGGTGGAGACTTGTAGACATAAG
GCGACGGTGGTGAAGGTGATGGTGGT
Found at i:122356307 original size:15 final size:15
Alignment explanation
Indices: 122356287--122356316 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
122356277 TTATAAACAT
*
122356287 ATGGAGGTGGTGGAG
1 ATGGAGATGGTGGAG
122356302 ATGGAGATGGTGGAG
1 ATGGAGATGGTGGAG
122356317 GTGGGGACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.57, T:0.20
Consensus pattern (15 bp):
ATGGAGATGGTGGAG
Found at i:122359219 original size:19 final size:19
Alignment explanation
Indices: 122359181--122359220 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
122359171 TACTTTCGTA
*
122359181 TTATTATTATTAGCATATT
1 TTATTATTATTAGCACATT
122359200 TTATTATTATTTAG-ACATT
1 TTATTATTA-TTAGCACATT
122359219 TT
1 TT
122359221 TAGCTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTATTATTAGCACATT
Found at i:122359364 original size:2 final size:2
Alignment explanation
Indices: 122359357--122359416 Score: 60
Period size: 2 Copynumber: 33.0 Consensus size: 2
122359347 ATTATACCAC
122359357 AT AT AT AT AT AT AT AT AT -T AT -T A- AT AT -T 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
* *
122359395 AT AT CT TT A- AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
122359417 TGTGTACATA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
1 6 0.12
2 43 0.88
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:122359387 original size:24 final size:23
Alignment explanation
Indices: 122359357--122359416 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
122359347 ATTATACCAC
122359357 ATATATATATATATATAT-TATTA
1 ATATATATATATATATATCT-TTA
122359380 ATATTATATATATATATATCTTTA
1 ATA-TATATATATATATATCTTTA
122359404 ATATAT-TATATAT
1 ATATATATATATAT
122359417 TGTGTACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.20
23 6 0.17
24 21 0.60
25 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATATATATATATATATCTTTA
Found at i:122359742 original size:12 final size:12
Alignment explanation
Indices: 122359725--122359786 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
122359715 ATACAACTAC
*
122359725 TATATATCTATT
1 TATATATTTATT
*
122359737 TATATAGTTA-T
1 TATATATTTATT
122359748 TA-ATAGTTTATT
1 TATATA-TTTATT
*
122359760 TATTTATTTATT
1 TATATATTTATT
*
122359772 TATTTATTTATT
1 TATATATTTATT
122359784 TAT
1 TAT
122359787 GATTATTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
10 3 0.07
11 6 0.14
12 32 0.74
13 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (12 bp):
TATATATTTATT
Found at i:122359763 original size:4 final size:4
Alignment explanation
Indices: 122359754--122359786 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
122359744 TTATTAATAG
122359754 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
122359787 GATTATTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:122360500 original size:132 final size:132
Alignment explanation
Indices: 122360251--122360517 Score: 376
Period size: 132 Copynumber: 2.0 Consensus size: 132
122360241 ATCATTTGTT
* * *
122360251 TAAAAATTCTTTAAAACGGAGACGATGTTCGATATTTAGCAATTCGAGGAATCGTGCCCTATCGT
1 TAAAAATTCTTTAAAACGAAGAAGATGTTCGATAATTAGCAATTCGAGGAATCGTGCCCTATCGT
* * * * *
122360316 GCTGGGTTGCAATTTCTCGTTTGCCCAAAATAATTGAATGTCTCTTTAGAATTTCGTTCATGTTT
66 GCTGGGTTGCAATTTCTCGTTTGCCCAAAATAATCGAATATCCCTTTAGAATTTCATTCATGGTT
122360381 TC
131 TC
* * *
122360383 TAAAAACTT-TTTAAAACGAAGGAAG-TGTTCGATAATTGGCAATTCGGGGAATTGTGCCCTATC
1 TAAAAA-TTCTTTAAAACGAA-GAAGATGTTCGATAATTAGCAATTCGAGGAATCGTGCCCTATC
* * *
122360446 GTGCTGGGTTGCAATTTCTCGTTTGCGCAAAATAATCGAATATCCCTTTGGAATTTCATTCGTGG
64 GTGCTGGGTTGCAATTTCTCGTTTGCCCAAAATAATCGAATATCCCTTTAGAATTTCATTCATGG
122360511 TTTC
129 TTTC
122360515 TAA
1 TAA
122360518 GGCAAGGCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
132 114 0.96
133 5 0.04
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (132 bp):
TAAAAATTCTTTAAAACGAAGAAGATGTTCGATAATTAGCAATTCGAGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCTCGTTTGCCCAAAATAATCGAATATCCCTTTAGAATTTCATTCATGGTT
TC
Found at i:122362650 original size:42 final size:42
Alignment explanation
Indices: 122362601--122362685 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
122362591 AAATTTCAAG
122362601 TATGTGTCCTTGCTTATAAATTTGAATTC-ATCTTTCAAAGGA
1 TATGTGTCCTTGCTTATAAATTTGAATTCTA-CTTTCAAAGGA
122362643 TATGTGTCCTTGCTTATAAATTTGAATTCTACTTTCAAAGGA
1 TATGTGTCCTTGCTTATAAATTTGAATTCTACTTTCAAAGGA
122362685 T
1 T
122362686 GCATGATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (42 bp):
TATGTGTCCTTGCTTATAAATTTGAATTCTACTTTCAAAGGA
Found at i:122372705 original size:15 final size:15
Alignment explanation
Indices: 122372685--122372714 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
122372675 CCCCACTACA
122372685 AACAACAACAATATC
1 AACAACAACAATATC
122372700 AACAACAACAATATC
1 AACAACAACAATATC
122372715 GTAGATTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (15 bp):
AACAACAACAATATC
Found at i:122379620 original size:210 final size:207
Alignment explanation
Indices: 122379182--122379737 Score: 610
Period size: 210 Copynumber: 2.7 Consensus size: 207
122379172 TATGTTAATA
* * *
122379182 ATATTAAACACATGTTCGATCATTGG---GGT--TTTTTAATTATTTTATTTAAATATGATATAA
1 ATATTAAACACATATTCGATCATTGGATTTGTAATTTGTAATTATTTTATTTAAA-ATGATATAA
* * * **
122379242 AAGTACGAAAAGATAAAAATGACATCATAATAATATTAATTATAATTTGAAAGGA-GTATTTCTA
65 AAGTATGAAAAGATAAAAGTGACATCATAATAATATTAATTATAATTTAAAAAAATGTATTTCTA
*** * *
122379306 TAATTTCATAATTGAGTTGGTAACCCAGTTAAGGGTGACACAAGCTCCATAAATTGCTTAAATAT
130 TAATTTCATAACCAAGTTGGTAACCCAGTTAAAGGTGACACAA-CTCCATAAAGTGCTTAAATAT
*
122379371 AAGTATTAGGTTAG
194 AAGTATTAGATTAG
* ** * * *
122379385 ATATTTAACATGTGTTTGATCATTGGATTTGTAATTTGTAATTATTTTATTTAAAGATGGTATAA
1 ATATTAAACACATATTCGATCATTGGATTTGTAATTTGTAATTATTTTATTTAAA-ATGATATAA
* * * * *
122379450 AAGTATGAAAAGACAAAAGTGACATCACAATAACATTGATTATTATTTTAAAAAAATTGTATTTC
65 AAGTATGAAAAGATAAAAGTGACATCATAATAATATTAATTA-TAATTTAAAAAAA-TGTATTTC
* * * *
122379515 TGTAATTTCATAACCAAGTTGGTGA-CCAGTTAAAGGTGACACTAA-TTCAGTAAAGTGTTTAAA
128 TATAATTTCATAACCAAGTTGGTAACCCAGTTAAAGGTGACAC-AACTCCA-TAAAGTGCTTAAA
*
122379578 TATAAGTATTATATTAG
191 TATAAGTATTAGATTAG
*
122379595 ATATTAAACACATATTCCG-TCATTGGATTTGTAATTTGTAATTATTTTATTTGAAAATTATATA
1 ATATTAAACACATATT-CGATCATTGGATTTGTAATTTGTAATTATTTTATTT-AAAATGATATA
* * * *
122379659 AAAATATAAAAAGATAAAAGTG-CTATCGTAATAATGTTAATTATAATTTAAAAGAAATGGTATT
64 AAAGTATGAAAAGATAAAAGTGAC-ATCATAATAATATTAATTATAATTTAAAA-AAAT-GTATT
*
122379723 TTTATAATTTCATAA
126 TCTATAATTTCATAA
122379738 TTGAGTAAGC
Statistics
Matches: 291, Mismatches: 47, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
203 22 0.08
206 2 0.01
208 64 0.22
209 23 0.08
210 147 0.51
211 33 0.11
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (207 bp):
ATATTAAACACATATTCGATCATTGGATTTGTAATTTGTAATTATTTTATTTAAAATGATATAAA
AGTATGAAAAGATAAAAGTGACATCATAATAATATTAATTATAATTTAAAAAAATGTATTTCTAT
AATTTCATAACCAAGTTGGTAACCCAGTTAAAGGTGACACAACTCCATAAAGTGCTTAAATATAA
GTATTAGATTAG
Found at i:122381064 original size:39 final size:39
Alignment explanation
Indices: 122381021--122381159 Score: 197
Period size: 39 Copynumber: 3.6 Consensus size: 39
122381011 TGAAATTTAG
122381021 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
*
122381060 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
** * *
122381099 CTGAAGCATTTGAGTGCCAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
* * * *
122381138 CTAAAGCTCATCAGAGCTAAAC
1 CTGAAGCACATAAGTGCTAAAC
122381160 TGAAACCCCA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.14
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAA
Found at i:122381087 original size:21 final size:21
Alignment explanation
Indices: 122381023--122381087 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
122381013 AAATTTAGCT
122381023 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
122381044 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
122381062 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
122381083 GAAGC
1 GAAGC
122381088 CCGGAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:122392299 original size:22 final size:23
Alignment explanation
Indices: 122392272--122392319 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
122392262 ATAAATTTAT
122392272 TAAATA-TTAAAATAAT-ATAATA
1 TAAATATTTAAAA-AATAATAATA
122392294 TAAATATTTTAAAAAATAATAATA
1 TAAATA-TTTAAAAAATAATAATA
122392318 TA
1 TA
122392320 GGTGATCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.26
23 3 0.13
24 14 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATATTTAAAAAATAATAATA
Found at i:122394712 original size:86 final size:87
Alignment explanation
Indices: 122394564--122394727 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 87
122394554 AAAATTTTTC
* * * *
122394564 AAAAAAATAAATTAATTAAGCCACTGTTTTTCTACACTCATTTGGGTACTTAAACTTTCAAAATG
1 AAAAAAATAAATCAATTAAGCCACTGTTTTTCTACACTCAGTTGAGTACTTAAACTGTCAAAATG
122394629 CATAAAAAATGCCTTTAAAAAT
66 CATAAAAAATGCCTTTAAAAAT
*
122394651 AAAAATAA-AAATCAATTAAGCCCCTGCTTTTT-T-CACTCAGTTGAGTACTTAAACTGTCAAAA
1 AAAAA-AATAAATCAATTAAGCCACTG-TTTTTCTACACTCAGTTGAGTACTTAAACTGTCAAAA
* *
122394713 TTCATTAAAAATGCC
64 TGCATAAAAAATGCC
122394728 CTTTGACCGT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 39 0.57
87 22 0.32
88 7 0.10
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (87 bp):
AAAAAAATAAATCAATTAAGCCACTGTTTTTCTACACTCAGTTGAGTACTTAAACTGTCAAAATG
CATAAAAAATGCCTTTAAAAAT
Found at i:122397161 original size:19 final size:19
Alignment explanation
Indices: 122397137--122397174 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
122397127 AGAAAAAGGG
122397137 GGGGCAAAATGTAATCTGA
1 GGGGCAAAATGTAATCTGA
122397156 GGGGCAAAATGTAATCTGA
1 GGGGCAAAATGTAATCTGA
122397175 CTCTTAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.21
Consensus pattern (19 bp):
GGGGCAAAATGTAATCTGA
Found at i:122418231 original size:30 final size:30
Alignment explanation
Indices: 122418195--122418254 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
122418185 TTCATCACAG
122418195 TTTGTCCACTGGTTCTCCCATTCCTTCGCC
1 TTTGTCCACTGGTTCTCCCATTCCTTCGCC
122418225 TTTGTCCACTGGTTCTCCCATTCCTTCGCC
1 TTTGTCCACTGGTTCTCCCATTCCTTCGCC
122418255 GACTGTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.07, C:0.40, G:0.13, T:0.40
Consensus pattern (30 bp):
TTTGTCCACTGGTTCTCCCATTCCTTCGCC
Found at i:122420827 original size:2 final size:2
Alignment explanation
Indices: 122420820--122420845 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
122420810 AATTTCAATC
122420820 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
122420846 TTTGTTCCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122421634 original size:6 final size:6
Alignment explanation
Indices: 122421623--122421647 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
122421613 CGCAATAGAG
122421623 GGGGAA GGGGAA GGGGAA GGGGAA G
1 GGGGAA GGGGAA GGGGAA GGGGAA G
122421648 AAGGGTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:122422412 original size:5 final size:5
Alignment explanation
Indices: 122422402--122422452 Score: 102
Period size: 5 Copynumber: 10.2 Consensus size: 5
122422392 AACTTTGCTG
122422402 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
122422452 A
1 A
122422453 AAAGGAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:122424834 original size:15 final size:15
Alignment explanation
Indices: 122424814--122424843 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
122424804 AAAATCAAGT
122424814 TATTATTTTTTAACA
1 TATTATTTTTTAACA
122424829 TATTATTTTTTAACA
1 TATTATTTTTTAACA
122424844 AAAATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTTTTTAACA
Found at i:122426584 original size:2 final size:2
Alignment explanation
Indices: 122426547--122426575 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
122426537 TTTCTTTGTA
122426547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122426576 GCAATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122440912 original size:6 final size:6
Alignment explanation
Indices: 122440901--122440938 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
122440891 GTATACTGTG
*
122440901 AAAATA AAAATA AAAATA AAAATA AAAATA ACAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
122440939 TGACAGCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:122464258 original size:30 final size:32
Alignment explanation
Indices: 122464208--122464267 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
122464198 AGTCCAATTA
*
122464208 GGTACCTGAATTTAGC-TTTTTGATCCAAAAT
1 GGTACCTGAACTTAGCTTTTTTGATCCAAAAT
* *
122464239 GGTATCTGAACTT-GCTTTTTTGGTCCAAA
1 GGTACCTGAACTTAGCTTTTTTGATCCAAA
122464268 TTAGTCCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (32 bp):
GGTACCTGAACTTAGCTTTTTTGATCCAAAAT
Found at i:122468196 original size:16 final size:16
Alignment explanation
Indices: 122468175--122468228 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
122468165 AATTATAGAA
122468175 ATTATTTTTTTAAAAT
1 ATTATTTTTTTAAAAT
*
122468191 ATTATTTTTGCTTGAAA-
1 ATTATTTTT--TTAAAAT
122468208 ATTATTTTTTTTAGAAAT
1 ATTA-TTTTTTTA-AAAT
122468226 ATT
1 ATT
122468229 TATTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 11 0.35
17 7 0.23
18 13 0.42
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTATTTTTTTAAAAT
Found at i:122468211 original size:17 final size:15
Alignment explanation
Indices: 122468173--122468218 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
122468163 AAAATTATAG
122468173 AAATTATTTTTTTAA
1 AAATTATTTTTTTAA
*
122468188 AATATTATTTTTGCTTGA
1 AA-ATTATTTTT--TTAA
122468206 AAATTATTTTTTT
1 AAATTATTTTTTT
122468219 TAGAAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 9 0.33
18 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (15 bp):
AAATTATTTTTTTAA
Found at i:122468224 original size:17 final size:17
Alignment explanation
Indices: 122468173--122468224 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
122468163 AAAATTATAG
122468173 AAATTA-TTTTTTTA-A
1 AAATTATTTTTTTTAGA
*
122468188 AATATTATTTTTGCTT-GA
1 AA-ATTATTTTT-TTTAGA
122468206 AAATTATTTTTTTTAGA
1 AAATTATTTTTTTTAGA
122468223 AA
1 AA
122468225 TATTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 2 0.07
16 6 0.20
17 17 0.57
18 5 0.17
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (17 bp):
AAATTATTTTTTTTAGA
Found at i:122470531 original size:141 final size:142
Alignment explanation
Indices: 122470271--122470533 Score: 386
Period size: 142 Copynumber: 1.9 Consensus size: 142
122470261 GAAACCCAAT
* * *
122470271 TTTTTTAAAAAATTAAACATACTATGTCGATTATTCATTCATATCTCAATTCGAGTAATAAATAA
1 TTTTTTAAAAAAATAAACATACTACGTCAATTATTCATTCATATCTCAATTCGAGTAATAAATAA
*
122470336 AAAATAAAAAGAACCATGTAAGAATAGGAGAAAGAGAAAACAAAGTGACAAGATAAAATTAATCC
66 AAAATAAAAAGAACCATGTAAGAATAGGAGAAAGAGAAAACAAAGTGAAAAGATAAAATTAATCC
122470401 GAAACTCAATTA
131 GAAACTCAATTA
* *
122470413 TTTTTTAAAAAAATAAACATATTACGTTAATTATTCATTCATATC-CAAATTCGAGTAATAAA-A
1 TTTTTTAAAAAAATAAACATACTACGTCAATTATTCATTCATATCTC-AATTCGAGTAATAAATA
* * * * * * *
122470476 AAGATTAAAAAGAAGCATGTAAGAATATGAGGATGAGAAAGCAAAGTGAAAAGATAAA
65 AAAAATAAAAAGAACCATGTAAGAATAGGAGAAAGAGAAAACAAAGTGAAAAGATAAA
122470534 GTGATAAAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
141 52 0.49
142 55 0.51
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.27
Consensus pattern (142 bp):
TTTTTTAAAAAAATAAACATACTACGTCAATTATTCATTCATATCTCAATTCGAGTAATAAATAA
AAAATAAAAAGAACCATGTAAGAATAGGAGAAAGAGAAAACAAAGTGAAAAGATAAAATTAATCC
GAAACTCAATTA
Found at i:122471829 original size:25 final size:25
Alignment explanation
Indices: 122471795--122471846 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
122471785 TTTTAAAAGG
122471795 CCGTCACCAAAAGAGAAACTGATAA
1 CCGTCACCAAAAGAGAAACTGATAA
122471820 CCGTCACCAAAAGAGAAACTGATAA
1 CCGTCACCAAAAGAGAAACTGATAA
122471845 CC
1 CC
122471847 CTAATAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.27, G:0.15, T:0.12
Consensus pattern (25 bp):
CCGTCACCAAAAGAGAAACTGATAA
Found at i:122489207 original size:2 final size:2
Alignment explanation
Indices: 122489200--122489235 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
122489190 AGGTTAAACA
122489200 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
122489236 CTTTTCCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122489433 original size:28 final size:28
Alignment explanation
Indices: 122489393--122489448 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
122489383 GGCGTACGGA
* *
122489393 GACCAGTTTTTAATAGTAAAATGGATAG
1 GACCAGGTTTTAATAGTAAAATGAATAG
122489421 GACCAGGTTTTAATAGTAAAATGAATAG
1 GACCAGGTTTTAATAGTAAAATGAATAG
122489449 AATTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (28 bp):
GACCAGGTTTTAATAGTAAAATGAATAG
Found at i:122489459 original size:24 final size:27
Alignment explanation
Indices: 122489396--122489468 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 27
122489386 GTACGGAGAC
*
122489396 CAGTTTTTAATAGTAAAATGGATAGGA
1 CAGTTTTTAATAGTAAAATGAATAGGA
*
122489423 CCAGGTTTTAATAGTAAAATGAATA-GA
1 -CAGTTTTTAATAGTAAAATGAATAGGA
*
122489450 -A-TTTTTAATAGTACAATGA
1 CAGTTTTTAATAGTAAAATGA
122489469 CTAAATTGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.39
25 1 0.02
27 2 0.05
28 22 0.54
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.34
Consensus pattern (27 bp):
CAGTTTTTAATAGTAAAATGAATAGGA
Found at i:122491423 original size:31 final size:31
Alignment explanation
Indices: 122491386--122491561 Score: 225
Period size: 31 Copynumber: 5.7 Consensus size: 31
122491376 TGTGTACAAT
122491386 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
122491417 GTGAAAAGTGGTAGCTTCGGTTACTTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
122491448 GTGAAAAGTAGTAGCTTCGGCTACCTAATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
122491479 GTGAAAAGTGGTAGCTTCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * * *
122491510 GTGAATAGTAGTAGCTTCGACTATC-GA--A
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
122491538 TGTGAAAAG-GGATAGCTTCGGCTA
1 -GTGAAAAGTGG-TAGCTTCGGCTA
122491562 TCGAATGTAA
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
28 2 0.02
29 18 0.14
30 2 0.02
31 104 0.83
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:122491553 original size:29 final size:29
Alignment explanation
Indices: 122491521--122491605 Score: 134
Period size: 29 Copynumber: 2.9 Consensus size: 29
122491511 TGAATAGTAG
*
122491521 TAGCTTCGACTATCGAATGTGAAAAGGGA
1 TAGCTTCGGCTATCGAATGTGAAAAGGGA
*
122491550 TAGCTTCGGCTATCGAATGTAAAAAGGGA
1 TAGCTTCGGCTATCGAATGTGAAAAGGGA
* *
122491579 TAGCTTTGGCCATCGAATGTGAAAAGG
1 TAGCTTCGGCTATCGAATGTGAAAAGG
122491606 TTAGGTATAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (29 bp):
TAGCTTCGGCTATCGAATGTGAAAAGGGA
Found at i:122491635 original size:33 final size:33
Alignment explanation
Indices: 122491598--122491786 Score: 229
Period size: 33 Copynumber: 5.8 Consensus size: 33
122491588 CCATCGAATG
** *
122491598 TGAAAAGGTTAGGTATACTTTGTGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
** * * *
122491631 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA-TA
*
122491663 TGAAAAGGAAAGGTATACTTTGTGTATACTATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
* *
122491696 TGAAAAAGAAATGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
* *
122491729 TGAAAATGAAGGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
*
122491762 TGAAAAGGAAATGTATACTTTGTGT
1 TGAAAAGGAAAGGTATACTTTGTGT
122491787 GCACCACTTA
Statistics
Matches: 134, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
32 26 0.19
33 108 0.81
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:122491677 original size:65 final size:66
Alignment explanation
Indices: 122491598--122491792 Score: 259
Period size: 66 Copynumber: 3.0 Consensus size: 66
122491588 CCATCGAATG
** * ** *
122491598 TGAAAAGGTTAGGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACTTTGTGTGTA-CAC
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGTGTACCA-
122491662 T-
65 TA
* * *
122491663 TGAAAAGGAAAGGTATACTTTGTGTATACTATATGAAAAAGAAATGTATACTTTGTGTATACCAT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGTGTACCAT
122491728 A
66 A
* * *
122491729 TGAAAATGAAGGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGTGCACCA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGTGTACCA
122491793 CTTAGAAAGA
Statistics
Matches: 113, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
65 53 0.47
66 60 0.53
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (66 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGTGTACCAT
A
Found at i:122491750 original size:66 final size:65
Alignment explanation
Indices: 122491598--122491786 Score: 254
Period size: 65 Copynumber: 2.9 Consensus size: 65
122491588 CCATCGAATG
** * ** * *
122491598 TGAAAAGGTTAGGTATACTTTGTGTATACCACATGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGTATACACT
* *
122491663 TGAAAAGGAAAGGTATACTTTGTGTATACTATATGAAAAAGAAATGTATACTTTGTGTATAC-CA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGTATACAC-
122491727 T
65 T
* *
122491728 ATGAAAATGAAGGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGT
1 -TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGT
122491787 GCACCACTTA
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
64 1 0.01
65 54 0.50
66 54 0.50
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (65 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAATGTATACTTTGTGTATACACT
Found at i:122494517 original size:24 final size:24
Alignment explanation
Indices: 122494489--122494534 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
122494479 ATATTTATAT
122494489 TTTAG-TATTATATATTACTAAAGA
1 TTTAGCTATTATATATTA-TAAAGA
* *
122494513 TTTAGCTTTTATATGTTATAAA
1 TTTAGCTATTATATATTATAAA
122494535 TTATATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
TTTAGCTATTATATATTATAAAGA
Found at i:122502265 original size:67 final size:66
Alignment explanation
Indices: 122502160--122502331 Score: 256
Period size: 67 Copynumber: 2.6 Consensus size: 66
122502150 TGGTTAAATA
* * *
122502160 GAATAAATTATTGAATTTTT-ATTTAATTGAATAAATTATATTTGATTATTTTATACGATTTTAT
1 GAATAAATTATCG-ATTTTTGATTTAATTGAATAAATTATATTTGATTAGTTTATACGATTTTAG
122502224 GT
65 GT
* *
122502226 GAATAAATTATCGATTTTTGATTTTAATTGAATAAATTATGTTTGATTAGTTTATTCGATTTTAG
1 GAATAAATTATCGATTTTTGA-TTTAATTGAATAAATTATATTTGATTAGTTTATACGATTTTAG
122502291 GT
65 GT
* *
122502293 AAATAAATTATCAATTTTTGATTTAATTGAATAAATTAT
1 GAATAAATTATCGATTTTTGATTTAATTGAATAAATTAT
122502332 CAATTTTATA
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
65 6 0.06
66 31 0.32
67 60 0.62
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (66 bp):
GAATAAATTATCGATTTTTGATTTAATTGAATAAATTATATTTGATTAGTTTATACGATTTTAGG
T
Found at i:122506728 original size:29 final size:29
Alignment explanation
Indices: 122506672--122506729 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
122506662 TAATTTATCC
**
122506672 TATATTTTATAATTAAATTTAAGTAAAAG
1 TATATTTTATAATTAAATTTAAAAAAAAG
* *
122506701 TATATTTTAATTATTAAATTAAAAAAAAA
1 TATATTTT-ATAATTAAATTTAAAAAAAA
122506730 ACCTTGCACC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (29 bp):
TATATTTTATAATTAAATTTAAAAAAAAG
Found at i:122511800 original size:2 final size:2
Alignment explanation
Indices: 122511793--122511832 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
122511783 AATAAGATGT
* *
122511793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122511833 ATTGAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:122511866 original size:26 final size:26
Alignment explanation
Indices: 122511818--122511867 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
122511808 ATATATATAT
* *
122511818 ATATTTATATTTATAATTGAATTTAA
1 ATATTTATATTTATAACTAAATTTAA
122511844 ATATTTATTATTTA-AACTAAATTT
1 ATATTTA-TATTTATAACTAAATTT
122511868 GTGCCTCGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
ATATTTATATTTATAACTAAATTTAA
Found at i:122519164 original size:17 final size:17
Alignment explanation
Indices: 122519133--122519175 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
122519123 TTATAGCATT
122519133 TTTAATTTCTATATAGTA
1 TTTAATTTCTATATA-TA
122519151 TTTAATTT-TATATATA
1 TTTAATTTCTATATATA
*
122519167 TGTAATTTC
1 TTTAATTTC
122519176 AAATAGGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 9 0.39
17 6 0.26
18 8 0.35
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTAATTTCTATATATA
Found at i:122531135 original size:34 final size:34
Alignment explanation
Indices: 122531092--122531157 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
122531082 TATGGCAAAA
122531092 TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
1 TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
*
122531126 TTGTAGTAAAATTCAAGTTACCATTGTTCTTT
1 TTGTAGTAAAATTCAAGCTACCATTGTTCTTT
122531158 TTCTTACAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (34 bp):
TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
Found at i:122536239 original size:22 final size:22
Alignment explanation
Indices: 122536199--122536243 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
122536189 ATTCAATAAA
*
122536199 TAAAAAATATATTATTAAATAT
1 TAAAAAATATAATATTAAATAT
122536221 TAAAATAATATAATA-TAAATAT
1 TAAAA-AATATAATATTAAATAT
122536243 T
1 T
122536244 TTTAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAAATATAATATTAAATAT
Found at i:122537159 original size:14 final size:14
Alignment explanation
Indices: 122537137--122537168 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
122537127 ACAGTGGTTT
122537137 CGAGACCACTATTC
1 CGAGACCACTATTC
*
122537151 CGAGTCCACTATTC
1 CGAGACCACTATTC
122537165 CGAG
1 CGAG
122537169 GCCAGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (14 bp):
CGAGACCACTATTC
Found at i:122537832 original size:20 final size:18
Alignment explanation
Indices: 122537807--122537843 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
122537797 ATTGCTAAGT
122537807 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
122537827 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
122537844 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:122538452 original size:46 final size:46
Alignment explanation
Indices: 122538400--122538575 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
122538390 TGGTTGAGCA
122538400 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
122538446 TTCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
122538491 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
122538539 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
122538576 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:122538556 original size:93 final size:93
Alignment explanation
Indices: 122538397--122538567 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
122538387 GGATGGTTGA
* *
122538397 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
122538462 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
* *
122538490 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
122538555 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
122538568 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:122548464 original size:17 final size:18
Alignment explanation
Indices: 122548431--122548464 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
122548421 TTTTTAATAA
*
122548431 AAAATTATTAATTATTTC
1 AAAATTATTAATAATTTC
122548449 AAAATT-TTAATAATTT
1 AAAATTATTAATAATTT
122548465 TAATTAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATTATTAATAATTTC
Found at i:122550013 original size:4 final size:4
Alignment explanation
Indices: 122550004--122550036 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
122549994 AAACAAGATA
*
122550004 GCAT GCAT GCAT GCAT GCAT GCGT GCAT GCAT G
1 GCAT GCAT GCAT GCAT GCAT GCAT GCAT GCAT G
122550037 TAAATCATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.24
Consensus pattern (4 bp):
GCAT
Found at i:122552658 original size:18 final size:18
Alignment explanation
Indices: 122552635--122552676 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
122552625 TTTAAGATCG
* *
122552635 TTTTTATTTTAAAAGTAT
1 TTTTTATCTCAAAAGTAT
122552653 TTTTTATCTCAAAAGTAT
1 TTTTTATCTCAAAAGTAT
122552671 TTTTTA
1 TTTTTA
122552677 AAATAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTTATCTCAAAAGTAT
Found at i:122559285 original size:22 final size:21
Alignment explanation
Indices: 122559238--122559285 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
122559228 CCTTAATTTT
*
122559238 TTAAATTTTGAAAATTAAAGA
1 TTAAATTTTGAAAATTAAAAA
*
122559259 TTAAATTTCTTAAAA-TAAAAA
1 TTAAATTT-TGAAAATTAAAAA
122559280 TATAAA
1 T-TAAA
122559286 ACTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
TTAAATTTTGAAAATTAAAAA
Found at i:122581097 original size:7 final size:7
Alignment explanation
Indices: 122581087--122581119 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
122581077 TTGGTGGAGC
122581087 TTGGAAA
1 TTGGAAA
122581094 TTGGAAA
1 TTGGAAA
122581101 TTGGAAA
1 TTGGAAA
122581108 TTGGAAA
1 TTGGAAA
122581115 TTGGA
1 TTGGA
122581120 GTCTGAGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (7 bp):
TTGGAAA
Found at i:122582639 original size:22 final size:27
Alignment explanation
Indices: 122582611--122582663 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 27
122582601 TGATTAGTTA
122582611 ATATTTTA-A-TA-ATTTA-AT-TATC
1 ATATTTTATATTACATTTATATATATC
122582633 ATATTTTATATTACATTTATATATATC
1 ATATTTTATATTACATTTATATATATC
122582660 ATAT
1 ATAT
122582664 ACGTTAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.31
23 1 0.04
24 2 0.08
25 5 0.19
26 2 0.08
27 8 0.31
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTTTATATTACATTTATATATATC
Found at i:122583162 original size:36 final size:36
Alignment explanation
Indices: 122583111--122583183 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
122583101 GTTAAAAAAG
*
122583111 TTTGATAACCAATCACAAAGTACCACGTGGCTGCTT
1 TTTGATAACCAATCACAAAGCACCACGTGGCTGCTT
*
122583147 TTTGATAACCGATCACAAAGCACCACGTGGCTGCTT
1 TTTGATAACCAATCACAAAGCACCACGTGGCTGCTT
122583183 T
1 T
122583184 ATATAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (36 bp):
TTTGATAACCAATCACAAAGCACCACGTGGCTGCTT
Found at i:122583258 original size:21 final size:21
Alignment explanation
Indices: 122583229--122583302 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
122583219 ATATATACAT
* *
122583229 TAAAAATATGAAAAATGAAAA
1 TAAATATATGAAAAATCAAAA
122583250 TAAATATAT-AAAAATTCAAAA
1 TAAATATATGAAAAA-TCAAAA
*
122583271 TATATATATGAAAAATCTAGAAA
1 TAAATATATGAAAAATC-A-AAA
*
122583294 AAAATATAT
1 TAAATATAT
122583303 TAAGTATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 5 0.11
21 23 0.52
22 6 0.14
23 10 0.23
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (21 bp):
TAAATATATGAAAAATCAAAA
Found at i:122583567 original size:20 final size:19
Alignment explanation
Indices: 122583525--122583568 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
122583515 ACCTTTTTAG
*
122583525 TTTTTATAACAATTTTTAA
1 TTTTTATAACAATTTTGAA
* *
122583544 TTTTTATATATAATTTTGAC
1 TTTTTATA-ACAATTTTGAA
122583564 TTTTT
1 TTTTT
122583569 TAATTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTATAACAATTTTGAA
Found at i:122584101 original size:3 final size:3
Alignment explanation
Indices: 122584095--122584125 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
122584085 AAAATTGATG
122584095 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
122584126 TATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:122586129 original size:2 final size:2
Alignment explanation
Indices: 122586122--122586147 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
122586112 CTTCTACGTC
122586122 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
122586148 TTTAATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:122592881 original size:22 final size:22
Alignment explanation
Indices: 122592853--122592897 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
122592843 TAGCCAAGGG
*
122592853 TTTTTTATTACACACGAGGCAC
1 TTTTTTATTACACAAGAGGCAC
122592875 TTTTTTATTACACAAGAGGCAC
1 TTTTTTATTACACAAGAGGCAC
122592897 T
1 T
122592898 CCGCGAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (22 bp):
TTTTTTATTACACAAGAGGCAC
Found at i:122599103 original size:47 final size:47
Alignment explanation
Indices: 122598994--122599104 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
122598984 CCGGGATAAG
*
122598994 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
122599041 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
122599088 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
122599105 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:122599881 original size:8 final size:8
Alignment explanation
Indices: 122599869--122599904 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
122599859 CCTTTTCTAT
*
122599869 TTCTTTCT
1 TTCTTTCC
122599877 TTCTTTCC
1 TTCTTTCC
122599885 TTCTTTCC
1 TTCTTTCC
122599893 TTCTTTCC
1 TTCTTTCC
122599901 TTCT
1 TTCT
122599905 CACGTTTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (8 bp):
TTCTTTCC
Found at i:122606462 original size:111 final size:110
Alignment explanation
Indices: 122606267--122606512 Score: 345
Period size: 111 Copynumber: 2.2 Consensus size: 110
122606257 TCATCAAAGT
* *
122606267 CATGGGAACAGAATATAACCAAGTCATTCCGATCCGTCAATCTAGCCATTAATCTAACCCTAAAC
1 CATGGAAACAGAACATAACCAAGTCATTCCGATCCGTCAATCTAGCCATTAATCTAACCCTAAAC
* * *
122606332 TTTGAAATTTCTGGCGAAATTAAATAAGGCTCAAAAGTGTTAGAAG
66 TTTCAAATTTCTGGCGAAA-TAAAGAAGGCTCAAAAGTGTAAGAAG
* *
122606378 CATGGAAACAGAACATAACCAAGTCCTTCCGTTCCGTCAATCTAG-CAGTTAATCTAACCCTAAA
1 CATGGAAACAGAACATAACCAAGTCATTCCGATCCGTCAATCTAGCCA-TTAATCTAACCCTAAA
* *
122606442 C-TTCAAATTT-TAGAGTGAAATCAAGAAGGCTCAAAAGTGTAAGAAG
65 CTTTCAAATTTCT-G-GCGAAATAAAGAAGGCTCAAAAGTGTAAGAAG
122606488 CATGGAAACAAGAACATAACCAAGT
1 CATGGAAAC-AGAACATAACCAAGT
122606513 AAAACCAGAT
Statistics
Matches: 122, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
109 1 0.01
110 43 0.35
111 78 0.64
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (110 bp):
CATGGAAACAGAACATAACCAAGTCATTCCGATCCGTCAATCTAGCCATTAATCTAACCCTAAAC
TTTCAAATTTCTGGCGAAATAAAGAAGGCTCAAAAGTGTAAGAAG
Found at i:122610394 original size:31 final size:28
Alignment explanation
Indices: 122610378--122610458 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 28
122610368 GGGCCTAACA
122610378 TTTTCAAAGTTGATCAAATGAAAGCTAAAT
1 TTTTCAAAG-TGATCAAAT-AAAGCTAAAT
*
122610408 TTTTCAAAGTGATCAAATAAAAGCCAAACCT
1 TTTTCAAAGTGATCAAAT-AAAGCTAAA--T
* *
122610439 TTTTGAAAGTGCTCAAATAA
1 TTTTCAAAGTGATCAAATAA
122610459 GAGTCAAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 17 0.38
30 11 0.24
31 17 0.38
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (28 bp):
TTTTCAAAGTGATCAAATAAAGCTAAAT
Found at i:122610420 original size:29 final size:30
Alignment explanation
Indices: 122610357--122610489 Score: 117
Period size: 31 Copynumber: 4.4 Consensus size: 30
122610347 CATTTGAAAA
** * *
122610357 TGATCAAATAAGGGCCTAACATTTTCAAAG
1 TGATCAAATAAAAGCCAAACTTTTTCAAAG
* *
122610387 TTGATCAAATGAAAGCTAAA-TTTTTCAAAG
1 -TGATCAAATAAAAGCCAAACTTTTTCAAAG
*
122610417 TGATCAAATAAAAGCCAAACCTTTTTGAAAG
1 TGATCAAATAAAAGCCAAA-CTTTTTCAAAG
* * * *
122610448 TGCTCAAATAAGAGTCAAACCTTTTTAAAAG
1 TGATCAAATAAAAGCCAAA-CTTTTTCAAAG
122610479 T-ACTCAAATAA
1 TGA-TCAAATAA
122610490 GGGCTTCTCA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.20
30 9 0.11
31 59 0.69
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (30 bp):
TGATCAAATAAAAGCCAAACTTTTTCAAAG
Found at i:122631540 original size:34 final size:34
Alignment explanation
Indices: 122631475--122631540 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
122631465 CAGTTAGGAC
* *
122631475 AATAATTTACTGAATCAATGACCCATAAAAAAAG
1 AATAATTTACTGAATCAATGACACACAAAAAAAG
*
122631509 AATAATTTACT-ACATCAATGACACACGAAAAA
1 AATAATTTACTGA-ATCAATGACACACAAAAAA
122631541 TACTAAAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.23
Consensus pattern (34 bp):
AATAATTTACTGAATCAATGACACACAAAAAAAG
Found at i:122639000 original size:30 final size:30
Alignment explanation
Indices: 122638964--122639043 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
122638954 TAGGTCTAAG
*
122638964 TTAAAGGTTAAGGGCTTCTTCAGG-TACAAA
1 TTAAAGGTTAAGGGCTTATT-AGGATACAAA
* * * *
122638994 TTAAAGGTCAAGAGCTTATTTGGATATAAA
1 TTAAAGGTTAAGGGCTTATTAGGATACAAA
* *
122639024 TTAAAGTTTAAGGCCTTATT
1 TTAAAGGTTAAGGGCTTATT
122639044 TGACTGTAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 2 0.05
30 38 0.95
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (30 bp):
TTAAAGGTTAAGGGCTTATTAGGATACAAA
Found at i:122641880 original size:19 final size:18
Alignment explanation
Indices: 122641846--122641881 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
122641836 TTTAATATAT
122641846 TTATTTATTTTAAAAATA
1 TTATTTATTTTAAAAATA
122641864 TTATTTATTTTATAAAAT
1 TTATTTATTTTA-AAAAT
122641882 TCTAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTTATTTTAAAAATA
Found at i:122641890 original size:19 final size:18
Alignment explanation
Indices: 122641825--122641892 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
122641815 ATTTAATTTT
*
122641825 TATTAATTACTTTT-AATA
1 TATTAATTA-TTTTAAAAA
*
122641843 TATTTATTTATTTTAAAAA
1 TA-TTAATTATTTTAAAAA
*
122641862 TATTATTTATTTTATAAAA
1 TATTAATTATTTTA-AAAA
122641881 T-TCTAATTATTT
1 TAT-TAATTATTT
122641893 AGTTTAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 19 0.44
19 24 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTAATTATTTTAAAAA
Found at i:122642102 original size:18 final size:17
Alignment explanation
Indices: 122642081--122642133 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
122642071 AAATTTTAAT
122642081 TTATGTTTAAAAATATAG
1 TTAT-TTTAAAAATATAG
*
122642099 TTA-TTTAATAAATTATAT
1 TTATTTTAA-AAA-TATAG
122642117 TTATTTTAAACAATATA
1 TTATTTTAAA-AATATA
122642134 AAATTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 15 0.50
19 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
TTATTTTAAAAATATAG
Found at i:122646683 original size:22 final size:22
Alignment explanation
Indices: 122646648--122646711 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
122646638 TATAATAGTG
* *
122646648 AAATAACGACAAAACAGT-GAAA
1 AAATAAC-AAAAAAAAGTAGAAA
*
122646670 AAATAACAAAAAAAAGTAGCAA
1 AAATAACAAAAAAAAGTAGAAA
*
122646692 AAA-AACAAGAAAATAGTAGA
1 AAATAACAA-AAAAAAGTAGA
122646712 TTCTTTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.69, C:0.09, G:0.12, T:0.09
Consensus pattern (22 bp):
AAATAACAAAAAAAAGTAGAAA
Found at i:122646693 original size:21 final size:22
Alignment explanation
Indices: 122646668--122646710 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
122646658 AAAACAGTGA
122646668 AAAAATAACAA-AAAAAAGTAGC
1 AAAAA-AACAAGAAAAAAGTAGC
*
122646690 AAAAAAACAAGAAAATAGTAG
1 AAAAAAACAAGAAAAAAGTAG
122646711 ATTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.72, C:0.07, G:0.12, T:0.09
Consensus pattern (22 bp):
AAAAAAACAAGAAAAAAGTAGC
Found at i:122647721 original size:24 final size:25
Alignment explanation
Indices: 122647694--122647743 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
122647684 GAGCAATTTG
122647694 AGTTTTTTTTAATTC-TCATTTTTA
1 AGTTTTTTTTAATTCATCATTTTTA
122647718 AGTTTTTTTTAATTCATTCATTTTTA
1 AGTTTTTTTTAATTCA-TCATTTTTA
122647744 CAATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 15 0.62
26 9 0.38
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (25 bp):
AGTTTTTTTTAATTCATCATTTTTA
Found at i:122653294 original size:21 final size:20
Alignment explanation
Indices: 122653259--122653299 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
122653249 GTAGTAAAAT
122653259 TTATTAAAATATTTATAATTA
1 TTATTAAAATATTTA-AATTA
122653280 TTATGTAAAAT-TTTAAATTA
1 TTAT-TAAAATATTTAAATTA
122653300 ATTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATTAAAATATTTAAATTA
Found at i:122653298 original size:20 final size:21
Alignment explanation
Indices: 122653259--122653333 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 21
122653249 GTAGTAAAAT
122653259 TTATTAAAATATTTATAATTA
1 TTATTAAAATATTTATAATTA
122653280 TTATGTAAAAT-TTTA-AATTA
1 TTAT-TAAAATATTTATAATTA
* * * *
122653300 AT-TTAATATTTTTATCA-TA
1 TTATTAAAATATTTATAATTA
122653319 TTAATATAAAATATT
1 TT-AT-TAAAATATT
122653334 GTTTATTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.12
19 8 0.19
20 7 0.17
21 9 0.21
22 13 0.31
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (21 bp):
TTATTAAAATATTTATAATTA
Found at i:122653382 original size:16 final size:15
Alignment explanation
Indices: 122653363--122653419 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
122653353 TTAATAATTA
*
122653363 AAAATTTTATATATAT
1 AAAATATTA-ATATAT
122653379 AAAATATTAA-ATTATT
1 AAAATATTAATA-TA-T
122653395 AAAATATTAATCATAT
1 AAAATATTAAT-ATAT
*
122653411 AAAAAATTA
1 AAAATATTA
122653420 CTAAAACGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 1 0.03
15 3 0.09
16 28 0.80
17 2 0.06
18 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATATTAATATAT
Found at i:122653399 original size:32 final size:33
Alignment explanation
Indices: 122653349--122653419 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
122653339 TTGTATATAT
* *
122653349 ATATTTAATAATTAAAAATTTTATAT-ATATAAA
1 ATATTAAATAATTAAAAATATTA-ATCATATAAA
*
122653382 ATATTAAATTATT-AAAATATTAATCATATAAA
1 ATATTAAATAATTAAAAATATTAATCATATAAA
*
122653414 AAATTA
1 ATATTA
122653420 CTAAAACGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 2 0.06
32 20 0.61
33 11 0.33
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (33 bp):
ATATTAAATAATTAAAAATATTAATCATATAAA
Found at i:122654984 original size:3 final size:3
Alignment explanation
Indices: 122654976--122655005 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
122654966 GTCTTTTGTG
122654976 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
122655006 CACTTTGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:122656364 original size:10 final size:9
Alignment explanation
Indices: 122656347--122656371 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
122656337 TATATTAGAT
122656347 ATAAAAAAA
1 ATAAAAAAA
122656356 ATAAAAAAA
1 ATAAAAAAA
122656365 ATAAAAA
1 ATAAAAA
122656372 TTTACCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:122657094 original size:2 final size:2
Alignment explanation
Indices: 122657087--122657123 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
122657077 TATGCGTTAT
122657087 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122657124 CCTTAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122657436 original size:2 final size:2
Alignment explanation
Indices: 122657429--122657466 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
122657419 TTTATTTATC
*
122657429 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122657467 ATTTGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122660564 original size:46 final size:47
Alignment explanation
Indices: 122660502--122660722 Score: 142
Period size: 46 Copynumber: 4.9 Consensus size: 47
122660492 ATAGGGAGAC
* *
122660502 CAAAATTTGAATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATTCAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
* *
122660549 CAAAATTCG-ATCTGCTTCACTCCTGCTCAGTGAAGATAAGA-TC-T
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
** * ** * ** *
122660593 -AGTATT-TAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGGTGAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
* * * * * * *
122660638 ---GATTGGAATCTGCTCCA-TCGCCGGT-ACGTGGAGATAAAATTCAT
1 CAAAATTCGAATCTGCTCCACTC-CTGCTCA-GCGAAGATAAGATTCAT
* *
122660682 CAAAATTCG-ATCTGCTCCACTACTG-TCAGTGAAGATAAGAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGAT
122660723 CTGGTGTTTA
Statistics
Matches: 134, Mismatches: 29, Indels: 24
0.72 0.16 0.13
Matches are distributed among these distances:
43 38 0.28
44 26 0.19
45 15 0.11
46 42 0.31
47 13 0.10
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (47 bp):
CAAAATTCGAATCTGCTCCACTCCTGCTCAGCGAAGATAAGATTCAT
Found at i:122660621 original size:43 final size:43
Alignment explanation
Indices: 122660513--122660895 Score: 180
Period size: 43 Copynumber: 8.7 Consensus size: 43
122660503 AAAATTTGAA
* * * * *
122660513 TCTGCTCCGCTCCTGCTCAGCGAAGATAAGATTCATCA-AAATTCG
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGA-TC-T-AGTATTTAG
*
122660558 ATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
* ** * *
122660602 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GGT-GATGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAG-T-ATT-TAG
* * * * * * *
122660646 TCTGCTCCA-TCGCCGGT-ACGTGGAGATAAAATTCATCA-AAATTCG
1 TCTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TC-T-AGTATTTAG
* * *
122660691 ATCTGCTCCACTACTG-TCAGTGAAGATAAGATCTGGTGTTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
* * * *
122660734 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCT-GATGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAG-T-ATT-TAG
* * * **
122660778 TCTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCATCAAAATTT-G
1 TCTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TC-T-AGTATTTAG
* *
122660823 ATCTGCTCCACTCCTG-TCAGTGAAGATAAGATCTAGTCTATAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
*
122660866 CCTGCTCCACTCCTGCTCAGTGAAGATAAG
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAG
122660896 GCTGATGATA
Statistics
Matches: 251, Mismatches: 55, Indels: 65
0.68 0.15 0.18
Matches are distributed among these distances:
41 2 0.01
42 35 0.14
43 74 0.29
44 52 0.21
45 25 0.10
46 55 0.22
47 8 0.03
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAG
Found at i:122660749 original size:132 final size:132
Alignment explanation
Indices: 122660536--122660904 Score: 648
Period size: 132 Copynumber: 2.8 Consensus size: 132
122660526 TGCTCAGCGA
*
122660536 AGATAAGATTCATCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTA
1 AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTG-TCAGTGAAGATAAGATCTAGTATTTA
*
122660601 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGGTGATGATTGGAATCTGCTCCATCGCCGGTACG
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
122660666 TGG
130 TGG
* * * *
122660669 AGATAAAATTCATCAAAATTCGATCTGCTCCACTACTGTCAGTGAAGATAAGATCTGGTGTTTAG
1 AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTATTTAG
122660734 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGT
66 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGT
122660799 GG
131 GG
* * *
122660801 AGATAAGATTCATCAAAATTTGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTCTATAG
1 AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTATTTAG
122660866 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
66 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
122660905 ATCTGTAATC
Statistics
Matches: 224, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
132 189 0.84
133 35 0.16
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (132 bp):
AGATAAGATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTAGTATTTAG
CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGT
GG
Found at i:122672865 original size:28 final size:30
Alignment explanation
Indices: 122672806--122672866 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
122672796 GGGGGATACG
* *
122672806 TATAATAAATTTAAGAGGGAAAATATATATA
1 TATAATAAATATAA-AGAGAAAATATATATA
* *
122672837 TATAATAAATATAAAGAGAACATTTATATA
1 TATAATAAATATAAAGAGAAAATATATATA
122672867 GAATAATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.33
Consensus pattern (30 bp):
TATAATAAATATAAAGAGAAAATATATATA
Found at i:122672873 original size:31 final size:31
Alignment explanation
Indices: 122672807--122672874 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
122672797 GGGGATACGT
* * *
122672807 ATAATAAATTTAAGAGGGAAAATATATATAT
1 ATAATAAATATAAGAGAGAAAATATATATAA
* *
122672838 ATAATAAATATAA-AGAGAACATTTATATAGA
1 ATAATAAATATAAGAGAGAAAATATATATA-A
122672869 ATAATA
1 ATAATA
122672875 TGAAAGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.31
Consensus pattern (31 bp):
ATAATAAATATAAGAGAGAAAATATATATAA
Found at i:122675454 original size:2 final size:2
Alignment explanation
Indices: 122675447--122675481 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
122675437 TTATTGGTGT
122675447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
122675482 TCTTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122675921 original size:2 final size:2
Alignment explanation
Indices: 122675914--122675970 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
122675904 TTATTGGTGT
122675914 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122675956 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
122675971 TCTTTTATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122676473 original size:451 final size:451
Alignment explanation
Indices: 122675954--122676872 Score: 1741
Period size: 451 Copynumber: 2.0 Consensus size: 451
122675944 TATATATATA
122675954 TATATATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTGTTTTAAAACACAA
1 TATATATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTGTTTTAAAACACAA
* *
122676019 AAAATGGTTTCGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTCAGGTTGTCTAAGTACTGT
66 AAAATAGTTTCGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTAAGGTTGTCTAAGTACTGT
122676084 TTGTTTTCAGTTTCTAATTTGTATTAGTTTGTTACTATTTATTTTTCCTATAATCTATTTTCGAG
131 TTGTTTTCAGTTTCTAATTTGTATTAGTTTGTTACTATTTATTTTTCCTATAATCTATTTTCGAG
*
122676149 GCAACGTGTAGTGGTGAAGGTACGAGGGTTGACAGGATTCTGACTCTCTTAAAATAAATTTTTTT
196 GCAACGTGTAGTGGTGAAAGTACGAGGGTTGACAGGATTCTGACTCTCTTAAAATAAATTTTTTT
122676214 ATTTAAGTTTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATCTATAAAAGAAAAA
261 ATTTAAGTTTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATCTATAAAA-AAAAA
122676279 TTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTTAAAAAAAC-GTCTTCTTTGATTTGTCA
325 TTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTTAAAAAAACAGTCTTCTTTGATTTGTCA
*
122676343 AAAAGGGTGGCTGTGTTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGATTTATTGGTGT
390 AAAAGGGTGGCTGTATTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGATTTATTGGTGT
122676405 TATATATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTGTTTTAAAACACAA
1 TATATATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTGTTTTAAAACACAA
*
122676470 AAAATAGTTTTGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTAAGGTTGTCTAAGTACTGT
66 AAAATAGTTTCGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTAAGGTTGTCTAAGTACTGT
* *
122676535 TTGTTTTCAGTTTCTAATTTGTATTGGTTTGTTACTATTTATTTTTCCTATAATCTATTTTTGAG
131 TTGTTTTCAGTTTCTAATTTGTATTAGTTTGTTACTATTTATTTTTCCTATAATCTATTTTCGAG
*
122676600 GCAACGTGTAGTGGTGAAAGTACGAGGGTTGACAGGATTCTGACTCTCTTAAAATAATTTTTTTT
196 GCAACGTGTAGTGGTGAAAGTACGAGGGTTGACAGGATTCTGACTCTCTTAAAATAAATTTTTTT
122676665 ATTTAAGTTTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATCTATAAAAAAAAAT
261 ATTTAAGTTTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATCTATAAAAAAAAAT
*
122676730 TCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTTAAAAAAACAGTCTTTTTTGATTTGTCAA
326 TCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTTAAAAAAACAGTCTTCTTTGATTTGTCAA
122676795 AAAGGGTGGCTGTATTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGATTTATTGGTGT
391 AAAGGGTGGCTGTATTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGATTTATTGGTGT
122676856 TATATATATATATATAT
1 TATATATATATATATAT
122676873 ATATATATAT
Statistics
Matches: 458, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
450 51 0.11
451 407 0.89
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (451 bp):
TATATATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTGTTTTAAAACACAA
AAAATAGTTTCGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTAAGGTTGTCTAAGTACTGT
TTGTTTTCAGTTTCTAATTTGTATTAGTTTGTTACTATTTATTTTTCCTATAATCTATTTTCGAG
GCAACGTGTAGTGGTGAAAGTACGAGGGTTGACAGGATTCTGACTCTCTTAAAATAAATTTTTTT
ATTTAAGTTTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATCTATAAAAAAAAAT
TCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTTAAAAAAACAGTCTTCTTTGATTTGTCAA
AAAGGGTGGCTGTATTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGATTTATTGGTGT
Found at i:122676863 original size:2 final size:2
Alignment explanation
Indices: 122676856--122676900 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
122676846 TTATTGGTGT
122676856 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122676898 TA T
1 TA T
122676901 TCTTTTATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:122676884 original size:940 final size:942
Alignment explanation
Indices: 122675048--122676900 Score: 3284
Period size: 940 Copynumber: 2.0 Consensus size: 942
122675038 TGAATCCCCA
*
122675048 TTTTAAAACAAAAAAATGGTTTCGACACTGGTAAAGTTACTTTTAGTTAAGAAGTAGTCAGGTTG
1 TTTTAAAACAAAAAAATGGTTTCGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTCAGGTTG
*
122675113 TCTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTGGTTTGTTACTATTTATTTTTCCTATAA
66 TCTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTAGTTTGTTACTATTTATTTTTCCTATAA
122675178 TCTATTTTCGAGGCAACGTGTAGTGGTGAAGGTACAAGGGTTGACAGGATTCTGACTCTCTTAAA
131 TCTATTTTCGAGGCAACGTGTAGTGGTGAAGGTACAAGGGTTGACAGGATTCTGACTCTCTTAAA
*
122675243 ATAATTTTTTTATTTAAGTCTATTTATAATTTATATTGAAATAATAAAATTTTGATTTAAATCTA
196 ATAATTTTTTTATTTAAGTCTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATCTA
122675308 TAAAAAAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTCAAAAAACAACGTCTTC
261 TAAAAAAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTCAAAAAACAACGTCTTC
122675373 TTTGATTTGTCAAAAAGGGTGGCTGTGTTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGATT
326 TTTGATTTGTCAAAAAGGGTGGCTGTGTTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGATT
122675438 TATTGGTGTTATATATATATATATATATATATATATATATATATTCTTTTATTTTTTATGTAAGA
391 TATTGGTG---------------T-TATATATATATATATATATTCTTTTATTTTTTATGTAAGA
*
122675503 TAATTGGATCCCTGTTTTAAAACACAAAAAATGGTTTCGACACAGGTAAAGTTACATTTAGTTAA
440 TAATTGGATCCCTGTTTTAAAACACAAAAAATAGTTTCGACACAGGTAAAGTTACATTTAGTTAA
*
122675568 GAAGTAGTCAGGTTGTCTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTGGTTTGTTACTAT
505 GAAGTAGTAAGGTTGTCTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTGGTTTGTTACTAT
* *
122675633 TTATTTTTCCTATAATCTATTTTCGAGGCAACGTGTAGTGGTGAAGGTACGAGAGTTGATAGAAT
570 TTATTTTTCCTATAATCTATTTTCGAGGCAACGTGTAGTGGTGAAAGTACGAGAGTTGACAGAAT
*
122675698 TATGACTCTCTTAAAATAATTTTTTTATTTAAGTCTATTTATAATTTATATTGAAATAATAAAAT
635 TATGACTCTCTTAAAATAATTTTTTTATTTAAGTCTATTTATAATTTATATTAAAATAATAAAAT
*
122675763 TTTGATTTAAATCTATAAAAAAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTCA
700 TTTGATTTAAATCTATAAAAAAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTAA
*
122675828 AAAAACGTCTTCTTTGATTTGTCAAAAAGGGTGGCTGTGTTTTTCCTTTTGGTTTGAAATTTGTG
765 AAAAACGTCTTCTTTGATTTGTCAAAAAGGGTGGCTGTATTTTTCCTTTTGGTTTGAAATTTGTG
122675893 GTGGCTTTGATTTATTGGTGTTATATATATATATATATATATATATATATATATATATATATATA
830 GTGGCTTTGATTTATTGGTGTTATATATATATATATATATATATATATATATATATATATATATA
122675958 TATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTG
895 TATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTG
122676006 TTTTAAAACACAAAAAATGGTTTCGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTCAGGTT
1 TTTTAAAACA-AAAAAATGGTTTCGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTCAGGTT
122676071 GTCTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTAGTTTGTTACTATTTATTTTTCCTATA
65 GTCTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTAGTTTGTTACTATTTATTTTTCCTATA
*
122676136 ATCTATTTTCGAGGCAACGTGTAGTGGTGAAGGTACGAGGGTTGACAGGATTCTGACTCTCTTAA
130 ATCTATTTTCGAGGCAACGTGTAGTGGTGAAGGTACAAGGGTTGACAGGATTCTGACTCTCTTAA
*
122676201 AATAAATTTTTTTATTTAAGTTTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATC
195 AAT-AATTTTTTTATTTAAGTCTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATC
* *
122676266 TATAAAAGAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACT-TAAAAA-AACGTCT
259 TATAAAAAAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTCAAAAAACAACGTCT
122676329 TCTTTGATTTGTCAAAAAGGGTGGCTGTGTTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGA
324 TCTTTGATTTGTCAAAAAGGGTGGCTGTGTTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGA
122676394 TTTATTGGTG-T-TATATATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTG
389 TTTATTGGTGTTATATATATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTG
* *
122676457 TTTTAAAACACAAAAAATAGTTTTGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTAAGGTT
454 TTTTAAAACACAAAAAATAGTTTCGACACAGGTAAAGTTACATTTAGTTAAGAAGTAGTAAGGTT
122676522 GTCTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTGGTTTGTTACTATTTATTTTTCCTATA
519 GTCTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTGGTTTGTTACTATTTATTTTTCCTATA
* * * *
122676587 ATCTATTTTTGAGGCAACGTGTAGTGGTGAAAGTACGAGGGTTGACAGGATTCTGACTCTCTTAA
584 ATCTATTTTCGAGGCAACGTGTAGTGGTGAAAGTACGAGAGTTGACAGAATTATGACTCTCTTAA
*
122676652 AATAATTTTTTTTATTTAAGTTTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATC
649 AATAA-TTTTTTTATTTAAGTCTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATC
122676717 TAT-AAAAAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTTAAAAAAACAGTCTT
713 TATAAAAAAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGAC-TAAAAAAAC-GTCTT
*
122676781 TTTTGATTTGTCAAAAAGGGTGGCTGTATTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGAT
776 CTTTGATTTGTCAAAAAGGGTGGCTGTATTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGAT
122676846 TTATTGGTGTTATATATATATATATATATATATATATATATATATATATATATAT
841 TTATTGGTGTTATATATATATATATATATATATATATATATATATATATATATAT
122676901 TCTTTTATTT
Statistics
Matches: 868, Mismatches: 22, Indels: 26
0.95 0.02 0.03
Matches are distributed among these distances:
940 287 0.33
941 69 0.08
942 123 0.14
958 92 0.11
959 189 0.22
960 108 0.12
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.42
Consensus pattern (942 bp):
TTTTAAAACAAAAAAATGGTTTCGACACAGGTAAAGTTACTTTTAGTTAAGAAGTAGTCAGGTTG
TCTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTAGTTTGTTACTATTTATTTTTCCTATAA
TCTATTTTCGAGGCAACGTGTAGTGGTGAAGGTACAAGGGTTGACAGGATTCTGACTCTCTTAAA
ATAATTTTTTTATTTAAGTCTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATCTA
TAAAAAAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTCAAAAAACAACGTCTTC
TTTGATTTGTCAAAAAGGGTGGCTGTGTTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGATT
TATTGGTGTTATATATATATATATATATTCTTTTATTTTTTATGTAAGATAATTGGATCCCTGTT
TTAAAACACAAAAAATAGTTTCGACACAGGTAAAGTTACATTTAGTTAAGAAGTAGTAAGGTTGT
CTAAGTACTGTTTGTTTTCAGTTTCTAATTTGTATTGGTTTGTTACTATTTATTTTTCCTATAAT
CTATTTTCGAGGCAACGTGTAGTGGTGAAAGTACGAGAGTTGACAGAATTATGACTCTCTTAAAA
TAATTTTTTTATTTAAGTCTATTTATAATTTATATTAAAATAATAAAATTTTGATTTAAATCTAT
AAAAAAAAAATTCCAAAGAAAACAAGGAAAATGCTGGGTGAAGGACTAAAAAAACGTCTTCTTTG
ATTTGTCAAAAAGGGTGGCTGTATTTTTCCTTTTGGTTTGAAATTTGTGGTGGCTTTGATTTATT
GGTGTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATTCT
TTTATTTTTTATGTAAGATAATTGGATCCCTG
Found at i:122677299 original size:22 final size:18
Alignment explanation
Indices: 122677277--122677316 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
122677267 TCTAATCATA
122677277 TAATATATTA--TTATTT
1 TAATATATTATTTTATTT
122677293 CTAATATATTATTTTATTT
1 -TAATATATTATTTTATTT
122677312 TAATA
1 TAATA
122677317 AAAAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.48
18 5 0.24
19 6 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATATATTATTTTATTT
Found at i:122679463 original size:2 final size:2
Alignment explanation
Indices: 122679456--122679491 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
122679446 TTATTGGTGT
122679456 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
122679492 TTATTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122680456 original size:6 final size:6
Alignment explanation
Indices: 122680417--122680457 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
122680407 ATAAAAATAA
*
122680417 TTTAAT TTATATT TTTAAT TTTAAT TTTAAT TTTAAT TTTA
1 TTTAAT TT-TAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTA
122680458 TGCAAATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:122683549 original size:14 final size:13
Alignment explanation
Indices: 122683530--122683569 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
122683520 AACCCGACTC
122683530 ATATTAATATTTTT
1 ATATTAAT-TTTTT
122683544 ATATT-ATTTTTT
1 ATATTAATTTTTT
*
122683556 ATATAAATTTTTT
1 ATATTAATTTTTT
122683569 A
1 A
122683570 AAAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 9 0.38
13 10 0.42
14 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:122683593 original size:17 final size:18
Alignment explanation
Indices: 122683571--122683616 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
122683561 AATTTTTTAA
*
122683571 AAAAATATATAATACA-T
1 AAAAATATATAAAACATT
122683588 AAAAATACTA-AAAACATT
1 AAAAATA-TATAAAACATT
122683606 AAAAATATATA
1 AAAAATATATA
122683617 TATGTTACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATATATAAAACATT
Found at i:122684997 original size:46 final size:46
Alignment explanation
Indices: 122684945--122685118 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
122684935 GTTGAGCATC
122684945 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
* * * *
122684991 CAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TT
* * * **
122685038 CGAGCTCGTTGAGTAGAGTCCAAGTTCACTTATGGATGCGAATGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
*
122685084 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
122685119 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.57
47 25 0.24
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
Found at i:122685108 original size:93 final size:93
Alignment explanation
Indices: 122684940--122685110 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
122684930 GGATGGTTGA
* * **
122684940 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTAGAGTCCAAGTTCACTTATGGATGCGAATGCCCAAACTCGTTGAGT
122685005 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
122685033 GCATTCGAGCTCGTTGAGTAGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTAGAGTCCAAGTTCACTTATGGATGCGAATGCCCAAACTCGTTGAGT
122685098 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
122685111 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTAGAGTCCAAGTTCACTTATGGATGCGAATGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:122688072 original size:46 final size:49
Alignment explanation
Indices: 122687960--122688094 Score: 158
Period size: 46 Copynumber: 2.9 Consensus size: 49
122687950 GAACTCGGGC
* * *
122687960 GTTCGCATCCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCTA
1 GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GATACTA
* * *
122688010 GTT-ACAT-C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGA-AC-A
1 GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATACTA
122688053 -TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
122688095 GATGCTCAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 4 0.06
46 51 0.71
47 2 0.03
48 1 0.01
49 3 0.04
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (49 bp):
GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATACTA
Found at i:122688115 original size:46 final size:45
Alignment explanation
Indices: 122687973--122688115 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
122687963 CGCATCCATA
* *
122687973 AGTGAACTTGGACTCAACTCAACGAGCTCGGATGCT-AGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA---ACCATCT
* * * * * *
122688019 CA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGCTCAACCATCT
122688065 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
122688111 AGTGA
1 AGTGA
122688116 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 57 0.76
47 4 0.05
48 3 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:122689723 original size:11 final size:11
Alignment explanation
Indices: 122689685--122689725 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
122689675 CAATAACAAT
122689685 AAAATAGTAGC
1 AAAATAGTAGC
* * *
122689696 AACATAATAGT
1 AAAATAGTAGC
122689707 AAAATAGTAGC
1 AAAATAGTAGC
122689718 AAAATAGT
1 AAAATAGT
122689726 GAAAAAAAAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:122689732 original size:22 final size:22
Alignment explanation
Indices: 122689685--122689731 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
122689675 CAATAACAAT
* *
122689685 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAATAGA
*
122689707 AAAATAGTAGCAAAATAGT-GA
1 AAAATAGTAGCAAAATAATAGA
122689728 AAAA
1 AAAA
122689732 AAACAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.60, C:0.06, G:0.15, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAATAGA
Found at i:122690593 original size:19 final size:19
Alignment explanation
Indices: 122690556--122690608 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
122690546 CAAAATTAAA
*
122690556 AATAA-AATAAAAGTTATAC
1 AATAACAATAAAA-TAATAC
122690575 AATAACAATAAAATAATAC
1 AATAACAATAAAATAATAC
122690594 AATAACAATAAAATA
1 AATAACAATAAAATA
122690609 GTAGCAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.23
Consensus pattern (19 bp):
AATAACAATAAAATAATAC
Found at i:122690641 original size:11 final size:11
Alignment explanation
Indices: 122690603--122690643 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
122690593 CAATAACAAT
122690603 AAAATAGTAGC
1 AAAATAGTAGC
* * *
122690614 AACATAATAGT
1 AAAATAGTAGC
122690625 AAAATAGTAGC
1 AAAATAGTAGC
122690636 AAAATAGT
1 AAAATAGT
122690644 GAAAAAAAAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:122690650 original size:22 final size:22
Alignment explanation
Indices: 122690603--122690649 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
122690593 CAATAACAAT
* *
122690603 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAATAGA
*
122690625 AAAATAGTAGCAAAATAGT-GA
1 AAAATAGTAGCAAAATAATAGA
122690646 AAAA
1 AAAA
122690650 AAACATGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.60, C:0.06, G:0.15, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAATAGA
Found at i:122693362 original size:23 final size:23
Alignment explanation
Indices: 122693313--122693364 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
122693303 TAAATTTTTT
* * *
122693313 TTGAATTTTGAGTTCGAATCAAG
1 TTGAATTTTGAATTCAAATCAAC
122693336 TTGAATTTTCGAATTCAAAT-AAC
1 TTGAATTTT-GAATTCAAATCAAC
122693359 TTGAAT
1 TTGAAT
122693365 AATTCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (23 bp):
TTGAATTTTGAATTCAAATCAAC
Found at i:122693633 original size:110 final size:111
Alignment explanation
Indices: 122693467--122693674 Score: 332
Period size: 110 Copynumber: 1.9 Consensus size: 111
122693457 TCCCACCTTC
* *
122693467 CCTCAAAACTTTTACCCCCTCTCATCCCAACCCACCCCCATCTACCCCAAATTCATTTCTTCCCA
1 CCTCAAAACTTTTACCCCCTCTCATCCCAACCCACCCCAATCTACCCCAAACTCATTTCTTCCCA
122693532 A-TTTTTTAAAAAATTTTCCC-C-AAAAATTTTACTCTCCAAAAAT
66 ATTTTTTTAAAAAATTTTCCCTCTAAAAATTTTACTCTCCAAAAAT
*
122693575 CCTCAAAACTTTTACTCCCCTCTCATCTCAACCCACCTCCAATCTACCCCAAACTCATTTCTTCC
1 CCTCAAAACTTTTAC-CCCCTCTCATCCCAACCCACC-CCAATCTACCCCAAACTCATTTCTTCC
*
122693640 CAATTTTTTTTAAAATATTTTCCCTCTAAAAATTT
64 CAA-TTTTTTTAAAAAATTTTCCCTCTAAAAATTT
122693675 ACTTTCCCCA
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
108 15 0.17
109 20 0.22
110 28 0.31
112 18 0.20
113 1 0.01
114 8 0.09
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.34
Consensus pattern (111 bp):
CCTCAAAACTTTTACCCCCTCTCATCCCAACCCACCCCAATCTACCCCAAACTCATTTCTTCCCA
ATTTTTTTAAAAAATTTTCCCTCTAAAAATTTTACTCTCCAAAAAT
Found at i:122693780 original size:131 final size:129
Alignment explanation
Indices: 122693546--122693811 Score: 308
Period size: 131 Copynumber: 2.0 Consensus size: 129
122693536 TTTAAAAAAT
* *
122693546 TTTCCCCAAAAATTTTACTCTCCAAAAATCCTCAAAACTTTTACTCCCCTCTCATCTCAACCCAC
1 TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACT-CCATCT-ATCTCAACCCAC
* ** *
122693611 CTCCAATCTACCCCAAACTCATTTCTTCCCAATTTTTTTTAAAATATTTTCCC-TCTAAAAATTT
64 CTCCAATCTACCCCAAACCCATCACTCCCCAATTTTTTTTAAAATATTTTCCCTTC-AAAAATTT
122693675 AC
128 AC
*
122693677 TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACT-CATCT-TCT-ATCCCACC-
1 TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACTCCATCTATCTCAACCCACCT
* * ** *
122693738 CCCATCTACCCTAAACCCATCCCACTCCCCCTTAATTTTTTTTTTTAATATTTTCCCTTCAAAAT
66 CCAATCTACCCCAAACCCAT--CACT-CCCC--AA-TTTTTTTTAAAATATTTTCCCTTCAAAAA
122693803 TTTAC
125 TTTAC
122693808 TTTC
1 TTTC
122693812 AAAAACCCCC
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
125 17 0.15
126 7 0.06
127 5 0.04
128 3 0.03
129 4 0.03
130 2 0.02
131 76 0.66
132 2 0.02
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (129 bp):
TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACTCCATCTATCTCAACCCACCT
CCAATCTACCCCAAACCCATCACTCCCCAATTTTTTTTAAAATATTTTCCCTTCAAAAATTTAC
Found at i:122699336 original size:3 final size:3
Alignment explanation
Indices: 122699328--122699359 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
122699318 ACAAAAGGCA
122699328 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
122699360 AAAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:122706918 original size:23 final size:26
Alignment explanation
Indices: 122706891--122706937 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
122706881 ACTCTCAACA
122706891 TTTAC-ACTTTG-T-TATTTTTTTCT
1 TTTACAACTTTGCTCTATTTTTTTCT
*
122706914 TTTACAATTTTGCTCTATTTTTTT
1 TTTACAACTTTGCTCTATTTTTTT
122706938 TTGTGACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 5 0.25
25 1 0.05
26 9 0.45
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTACAACTTTGCTCTATTTTTTTCT
Found at i:122708165 original size:22 final size:22
Alignment explanation
Indices: 122708119--122708165 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
122708109 TTTAGATTAG
*
122708119 TTTAATATTATTTAATTAAATA
1 TTTAATATTATTTAATCAAATA
122708141 TTTAA-ATTAGTTTAAATCAAA-A
1 TTTAATATTA-TTT-AATCAAATA
122708163 TTT
1 TTT
122708166 TAACCAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 12 0.55
23 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTAATATTATTTAATCAAATA
Found at i:122718724 original size:21 final size:21
Alignment explanation
Indices: 122718679--122718724 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
122718669 GGTTGAACCG
*
122718679 ATTTTCTAATTTTTTTAATAT
1 ATTTTCTAATTTTTTTAATAA
*
122718700 ATTTT-TAATTTTTTTTATGAA
1 ATTTTCTAATTTTTTTAAT-AA
122718721 ATTT
1 ATTT
122718725 CCCTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTCTAATTTTTTTAATAA
Found at i:122726862 original size:7 final size:7
Alignment explanation
Indices: 122726850--122726874 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
122726840 TTTTTTTAAA
122726850 TTAAATT
1 TTAAATT
122726857 TTAAATT
1 TTAAATT
122726864 TTAAATT
1 TTAAATT
122726871 TTAA
1 TTAA
122726875 TAATTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Done.