Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 98 of 153
Found at i:30956112 original size:21 final size:21
Alignment explanation
Indices: 30956086--30956128 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
30956076 TCCATTTACC
30956086 TTAATTTTTCCTTCTATTATA
1 TTAATTTTTCCTTCTATTATA
30956107 TTAATTTTTCCTTCTATTATA
1 TTAATTTTTCCTTCTATTATA
30956128 T
1 T
30956129 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (21 bp):
TTAATTTTTCCTTCTATTATA
Found at i:30957134 original size:23 final size:23
Alignment explanation
Indices: 30957104--30957149 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
30957094 GATTGAGGTC
30957104 TGTTCTTTGTAATTTTTATATTT
1 TGTTCTTTGTAATTTTTATATTT
30957127 TGTTCTTTGTAATTTTTATATTT
1 TGTTCTTTGTAATTTTTATATTT
30957150 CTGAGATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.09, T:0.70
Consensus pattern (23 bp):
TGTTCTTTGTAATTTTTATATTT
Found at i:30958806 original size:13 final size:13
Alignment explanation
Indices: 30958788--30958812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30958778 GTTGATGGTT
30958788 TTGAAGTTATAAG
1 TTGAAGTTATAAG
30958801 TTGAAGTTATAA
1 TTGAAGTTATAA
30958813 TGTACTTTAA
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGAAGTTATAAG
Found at i:30961729 original size:50 final size:50
Alignment explanation
Indices: 30961651--30961747 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
30961641 ACTCACTTGA
* * *
30961651 GACTTCCTTGCCTTATTTGCTTAACTTTTTCTAGACACTGGAGCTTCCAT
1 GACTTCCTCGCCTTATCTGCTTAACTTTTTCTAGACACTAGAGCTTCCAT
* *
30961701 GACTTCCTCGCCTTATCTGCTTAGCTTTTTCTAGACGCTAGAGCTTC
1 GACTTCCTCGCCTTATCTGCTTAACTTTTTCTAGACACTAGAGCTTC
30961748 TATTCTCCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.16, C:0.28, G:0.15, T:0.40
Consensus pattern (50 bp):
GACTTCCTCGCCTTATCTGCTTAACTTTTTCTAGACACTAGAGCTTCCAT
Found at i:30966866 original size:3 final size:3
Alignment explanation
Indices: 30966860--30966893 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
30966850 AACTAATAAG
* *
30966860 TTA TTA TTA TGA TGA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30966894 CTATGTCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:30967015 original size:17 final size:18
Alignment explanation
Indices: 30966986--30967022 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30966976 CTTTTTTATT
30966986 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
30967004 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
30967021 TT
1 TT
30967023 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:30978116 original size:19 final size:17
Alignment explanation
Indices: 30978092--30978137 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
30978082 TATTTCACTT
30978092 AAAAAAAGGGCATTTNTAA
1 AAAAAAAGGGC-TTT-TAA
*
30978111 AAAAAAGGGGCTTTTAA
1 AAAAAAAGGGCTTTTAA
30978128 AAAAAAAGGG
1 AAAAAAAGGG
30978138 AGAGGCCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.48
18 3 0.12
19 10 0.40
ACGTcount: A:0.54, C:0.04, G:0.22, T:0.17
Consensus pattern (17 bp):
AAAAAAAGGGCTTTTAA
Found at i:30978134 original size:18 final size:19
Alignment explanation
Indices: 30978092--30978137 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
30978082 TATTTCACTT
*
30978092 AAAAAAA-GGGCATTTNTA
1 AAAAAAAGGGGCATTTATA
*
30978110 AAAAAAAGGGGCTTTTA-A
1 AAAAAAAGGGGCATTTATA
30978128 AAAAAAAGGG
1 AAAAAAAGGG
30978138 AGAGGCCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.54, C:0.04, G:0.22, T:0.17
Consensus pattern (19 bp):
AAAAAAAGGGGCATTTATA
Found at i:30979493 original size:49 final size:49
Alignment explanation
Indices: 30979436--30979611 Score: 156
Period size: 49 Copynumber: 3.6 Consensus size: 49
30979426 GCAGCGGAAC
* * *
30979436 AGATTGAAGCTACAACAGCGAGTCTCACTTCCCCGACATTGCAATTAAA
1 AGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAGTCAAA
* * * * ** ** * * *
30979485 AGATTGAAGCCATAACGGCGAATCTCATTTCCTTG-CGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAGT-CAAA
* ** * *
30979534 AGATTGAAGCTACGATGGCGAATCTCGCTTCCCCAACATTGCAGTCAAA
1 AGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAGTCAAA
30979583 TAGATTGAAGCTACAACAGCGAATCTCAC
1 -AGATTGAAGCTACAACAGCGAATCTCAC
30979612 ATCATTGGCG
Statistics
Matches: 93, Mismatches: 31, Indels: 5
0.72 0.24 0.04
Matches are distributed among these distances:
48 5 0.05
49 58 0.62
50 30 0.32
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (49 bp):
AGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAGTCAAA
Found at i:30979565 original size:98 final size:98
Alignment explanation
Indices: 30979374--30979715 Score: 317
Period size: 98 Copynumber: 3.5 Consensus size: 98
30979364 GTAACCATAG
* * * ** *
30979374 ATTGCAATTTAAAAGATCGAAGCCACAATGGCGAATCTTACTTT-CAGGCGATGCAGCGGAACAG
1 ATTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTCA-TTTCCTTGCGATGCAGTGGAACAG
** * *
30979438 ATTGAAGCTACAACAGCGAGTCTCACTTCCCCGAC
64 ATTGAAGCTACAATGGCGAATCTCACTTCCCCAAC
* * *
30979473 ATTGCAATTAAAAGATTGAAGCCATAACGGCGAATCTCATTTCCTTGCGGTGTAGTGGAACAGAT
1 ATTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCATTTCCTTGCGATGCAGTGGAACAGAT
* *
30979538 TGAAGCTACGATGGCGAATCTCGCTTCCCCAAC
66 TGAAGCTACAATGGCGAATCTCACTTCCCCAAC
* * * * ** * *
30979571 ATTGCAGTCAAATAGATTGAAGCTACAACAGCGAATCTCACATCATTGGCGATACAGTGGAACAG
1 ATTGCAATTAAA-AGATTGAAGCCACAACGGCGAATCTCATTTCCTT-GCGATGCAGTGGAACAG
* *** ** *
30979636 ATTGAAGCTACAATGGCGAACCTTGTTTTGCCAGC
64 ATTGAAGCTACAATGGCGAATCTCACTTCCCCAAC
** * ** *
30979671 ATTGCAGCTAGAAGATTGAAGCTGCAACGGCGAATCTTATTTCCT
1 ATTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCATTTCCT
30979716 CAACGGGACC
Statistics
Matches: 198, Mismatches: 42, Indels: 6
0.80 0.17 0.02
Matches are distributed among these distances:
97 3 0.02
98 82 0.41
99 62 0.31
100 51 0.26
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (98 bp):
ATTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCATTTCCTTGCGATGCAGTGGAACAGAT
TGAAGCTACAATGGCGAATCTCACTTCCCCAAC
Found at i:30980301 original size:5 final size:5
Alignment explanation
Indices: 30980291--30980317 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30980281 GCGTTCCTTG
30980291 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
30980318 TCCTTTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:30981108 original size:3 final size:3
Alignment explanation
Indices: 30981102--30981138 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
30981092 AACTAATAAG
*
30981102 TTA TTA TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30981139 CTATGTCTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:30981260 original size:17 final size:18
Alignment explanation
Indices: 30981231--30981267 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30981221 CTTTTTTATT
30981231 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
30981249 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
30981266 TT
1 TT
30981268 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:30984980 original size:113 final size:113
Alignment explanation
Indices: 30984782--30985217 Score: 660
Period size: 113 Copynumber: 3.9 Consensus size: 113
30984772 AAAATAAGCA
** * ** * *
30984782 TTAGCGGCGTTTTCCAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCG-TTTGCAGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTG-TGGGCTT
*
30984846 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCG-CAGCTAATGGTCAGGGCT
65 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCA-CTAATGCTCAGGGCT
* * *
30984895 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAAATAAGCTCAACGGCGCCGTTTTGTGGGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
30984960 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
* * *
30985008 TTAGCGGCGTTTTTGAGAAAGCGCCGTAAGAAAAATAAGCCCAACGACGTCGTTTTGTGGGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
* * *
30985073 TGGGGATTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCTTAGTGCT
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
*
30985121 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCTGTTTTGTGGGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
**
30985186 TGGGGATTTAGCAACGTTTTTAAGAAAGCGCC
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCC
30985218 GCAAAAAACA
Statistics
Matches: 294, Mismatches: 27, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
113 288 0.98
114 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
Found at i:30985239 original size:72 final size:72
Alignment explanation
Indices: 30985128--30985269 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 72
30985118 GCTTTAGCGG
* * * * *
30985128 CGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCTGTTTTGTGGGCTTTTGGGGAT
1 CGTTTTTAAGAAAGCGCCGCAAAAAAAATAAGCCAAACGACGCCGTTTTGTGAGCTTTCGGGGAT
30985193 TTAGCAA
66 TTAGCAA
*
30985200 CGTTTTTAAGAAAGCGCCGCAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCTTTCGGGGAT
1 CGTTTTTAAGAAAGCGCCGCAAAAAAAATAAGCCAAACGACGCCGTTTTGTGAGCTTTCGGGGAT
30985265 TTAGC
66 TTAGC
30985270 GGCCAAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (72 bp):
CGTTTTTAAGAAAGCGCCGCAAAAAAAATAAGCCAAACGACGCCGTTTTGTGAGCTTTCGGGGAT
TTAGCAA
Found at i:30985464 original size:14 final size:14
Alignment explanation
Indices: 30985447--30985477 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30985437 GGTTTAGAGT
30985447 TTATGGATTAGGGA
1 TTATGGATTAGGGA
*
30985461 TTATGGATTATGGA
1 TTATGGATTAGGGA
30985475 TTA
1 TTA
30985478 GGGGTTGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (14 bp):
TTATGGATTAGGGA
Found at i:30985513 original size:15 final size:15
Alignment explanation
Indices: 30985493--30985521 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30985483 TGGGATTTAA
30985493 GGTTTAGGGGTTAGT
1 GGTTTAGGGGTTAGT
30985508 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
30985522 ATGTGCTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (15 bp):
GGTTTAGGGGTTAGT
Found at i:30985790 original size:276 final size:287
Alignment explanation
Indices: 30985344--30985943 Score: 712
Period size: 276 Copynumber: 2.1 Consensus size: 287
30985334 ATTATTTAAA
* * * *
30985344 ATAATTGAAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTGGTTTAGGGTATATGATTTATCT
1 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAAGGTATATGATTAATCT
* * * * *
30985409 AAGATTTAAGGCCGATTTAAGGAGTATGGGTTTAGAGTTTATGGATTAGGGATTATGGATTATGG
66 AAGATTTAAGGCCGATTTAAGGAGTATGAGTTTAGAGTTTAAGGAGTAGGGATTAGGGATTATGA
* *
30985474 ATTAGGGGTTGGGATTTAAGGTTTAGGGGTTAGTGGTTTAGGGGTTA-G-AT-G-TGCTA-GG-G
131 ATTAGGGATTGGGATTTAAGGTTTAGGGGTTAGAGGTTTAGGGGTTAGGTATAGATGCTAGGGAG
* *
30985533 -GTTA-A-AA-G-TTAGGGATTTAGGGGTCGAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTT
196 AGTTAGATAAGGTTTAGGGATTTAGGGGTCGAGTTAAGGTTTTGAGTTTAGATTAATTATTTTTT
30985593 TAATTTATATTTTAAATATGTTCTTAT
261 TAATTTATATTTTAAATATGTTCTTAT
* *
30985620 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAAGGTATGTGATTAATTT
1 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAAGGTATATGATTAATCT
* * * * * *
30985685 AATATTTAAGGCCGGTTT-AGGAGTTCTTATTTTA-AGGTTTAAGGAGTATGGATTTAGGGATTA
66 AAGATTTAAGGCCGATTTAAGGAG-TATGAGTTTAGA-GTTTAAGGAGTAGGGA-TTAGGGATTA
* * *
30985748 TGAATTAGGGATTATGG-TTTAA-GTGTT-GGGATTTA-AGGTTTAGGGGTTAGGGGTTTAGATG
128 TGAATTAGGGATT-GGGATTTAAGGT-TTAGGG-GTTAGAGGTTTAGGGGTTA--GGTATAGATG
*
30985809 TTAGGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGATTTAGGGGTCGAGTTAAGGTTTTGAGTTT
188 CTA-GGG---AGAGTTA--GA--TAAGGTTTAGGGATTTAGGGGTCGAGTTAAGGTTTTGAGTTT
30985874 AGATTAATTATTTTTTTAATTTATATTTTAAATATGTTCTTAT
245 AGATTAATTATTTTTTTAATTTATATTTTAAATATGTTCTTAT
30985917 ATAATTGTAAAAGAGATAATAATAAAT
1 ATAATTGTAAAAGAGATAATAATAAAT
30985944 CAAATATATT
Statistics
Matches: 272, Mismatches: 25, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
275 6 0.02
276 112 0.41
277 30 0.11
278 2 0.01
279 1 0.00
280 1 0.00
281 1 0.00
282 4 0.01
284 2 0.01
288 1 0.00
289 4 0.01
292 1 0.00
295 2 0.01
296 1 0.00
297 104 0.38
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (287 bp):
ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAAGGTATATGATTAATCT
AAGATTTAAGGCCGATTTAAGGAGTATGAGTTTAGAGTTTAAGGAGTAGGGATTAGGGATTATGA
ATTAGGGATTGGGATTTAAGGTTTAGGGGTTAGAGGTTTAGGGGTTAGGTATAGATGCTAGGGAG
AGTTAGATAAGGTTTAGGGATTTAGGGGTCGAGTTAAGGTTTTGAGTTTAGATTAATTATTTTTT
TAATTTATATTTTAAATATGTTCTTAT
Found at i:30985804 original size:15 final size:15
Alignment explanation
Indices: 30985784--30985853 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
30985774 TGGGATTTAA
30985784 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
**
30985799 GGTTTAGATGTTAGG
1 GGTTTAGGGGTTAGG
* *
30985814 GG-TTAAGAGTTAGG
1 GGTTTAGGGGTTAGG
* * *
30985828 GATTTAAGGTTTAGG
1 GGTTTAGGGGTTAGG
*
30985843 GATTTAGGGGT
1 GGTTTAGGGGT
30985854 CGAGTTAAGG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
14 10 0.23
15 34 0.77
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:30986686 original size:5 final size:5
Alignment explanation
Indices: 30986676--30986700 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30986666 TAGCCCCTTT
30986676 TAGCA TAGCA TAGCA TAGCA TAGCA
1 TAGCA TAGCA TAGCA TAGCA TAGCA
30986701 AAACGGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
TAGCA
Found at i:30986891 original size:158 final size:151
Alignment explanation
Indices: 30986461--30986892 Score: 569
Period size: 158 Copynumber: 2.9 Consensus size: 151
30986451 GCGGTGTTTT
* *
30986461 TAAGCAATAGCGGCGTTTTTAT-AAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCC-
1 TAAGCAATAGCGACGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAGCCCT
* ** * * *
30986524 CTT-T-TAGCATAGCATAGCAAAACGGCATAACTTTGTTCAAAATGAATTTTTTTGCGGCGTTTT
66 ATTATATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAATAAATTTTTTTGCGGCATTTT
30986587 TATGAAAAACACCGCTAAAGG
131 TATGAAAAACACCGCTAAAGG
*
30986608 TAAGCAATAGCGGCGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAGCCCC
1 TAAGCAATAGCGACGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAG-CCC
* *
30986673 TTTTAGCATAGCATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAATGAATTTTTTTGCG
65 TATT---AT---ATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAATAAATTTTTTTGCG
* *
30986738 GCATTTTTATGAAAAACGCTGCTAAAGG
124 GCATTTTTATGAAAAACACCGCTAAAGG
*
30986766 TAAGCAATAGCGACGTTTTTAT-AAAAAACGCCACAAAATAATTTTAC-TTTAAAAAATAG-CC-
1 TAAGCAATAGCGACGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAGCCCT
* * *
30986827 ATT-T-TAGCATAGCATAGCAAAACGGCGTAGTTTTGTTTAAAATAAAAATTTTTTACGGCATTT
66 ATTATATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAAT-AAATTTTTTTGCGGCATTT
30986890 TTA
130 TTA
30986893 AGCAATAGCG
Statistics
Matches: 258, Mismatches: 15, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
145 38 0.15
146 19 0.07
147 22 0.09
148 37 0.14
149 4 0.02
150 2 0.01
153 2 0.01
154 3 0.01
156 11 0.04
157 25 0.10
158 95 0.37
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (151 bp):
TAAGCAATAGCGACGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAGCCCT
ATTATATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAATAAATTTTTTTGCGGCATTTT
TATGAAAAACACCGCTAAAGG
Found at i:30990242 original size:42 final size:42
Alignment explanation
Indices: 30990196--30990311 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 42
30990186 AAAGAAGCGT
** * *
30990196 CGCTAAAGGTCATGTTCTTTAGTGGCGTTTTTCTCTAAACGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAACGC
* * *
30990238 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTGTAAGCGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAACGC
*
30990280 CGCTAAAGAACATGGTCTTTAGCAGCGTTTTT
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
30990312 GTTTGTAAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (42 bp):
CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAACGC
Found at i:30990392 original size:21 final size:22
Alignment explanation
Indices: 30990369--30990411 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
30990359 TAGTGGCGTT
*
30990369 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAGACCTA
*
30990391 AAAAAATGCCGCTAAAGACCT
1 AAAAAACGCCGCTAAAGACCT
30990412 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAGACCTA
Found at i:30992038 original size:84 final size:84
Alignment explanation
Indices: 30991940--30992161 Score: 444
Period size: 84 Copynumber: 2.6 Consensus size: 84
30991930 AGACATAAGA
30991940 AATATAAATGTAATAGAACTCTACTTCTAATGACTATTAGAATTTAAAGTATATAGTGTTTTTCG
1 AATATAAATGTAATAGAACTCTACTTCTAATGACTATTAGAATTTAAAGTATATAGTGTTTTTCG
30992005 ATCTATTTTAACCAATACC
66 ATCTATTTTAACCAATACC
30992024 AATATAAATGTAATAGAACTCTACTTCTAATGACTATTAGAATTTAAAGTATATAGTGTTTTTCG
1 AATATAAATGTAATAGAACTCTACTTCTAATGACTATTAGAATTTAAAGTATATAGTGTTTTTCG
30992089 ATCTATTTTAACCAATACC
66 ATCTATTTTAACCAATACC
30992108 AATATAAATGTAATAGAACTCTACTTCTAATGACTATTAGAATTTAAAGTATAT
1 AATATAAATGTAATAGAACTCTACTTCTAATGACTATTAGAATTTAAAGTATAT
30992162 CAAAACTTAT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 138 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (84 bp):
AATATAAATGTAATAGAACTCTACTTCTAATGACTATTAGAATTTAAAGTATATAGTGTTTTTCG
ATCTATTTTAACCAATACC
Found at i:31002464 original size:39 final size:39
Alignment explanation
Indices: 31002421--31002555 Score: 189
Period size: 39 Copynumber: 3.4 Consensus size: 39
31002411 CATATTCACT
*
31002421 TTTAAGCATATATCACATTACACATATAATCTCATAACA
1 TTTAAGCATATATCACATTACACATATAATCACATAACA
* * * *
31002460 TTTAAAGCATATATCACAATACTCGTATAAGCACATAACA
1 TTT-AAGCATATATCACATTACACATATAATCACATAACA
* * *
31002500 TTCAAGCATATACCTCATTACACATATAATCACATAACA
1 TTTAAGCATATATCACATTACACATATAATCACATAACA
31002539 TTTAAGCATATATCACA
1 TTTAAGCATATATCACA
31002556 ATACTCAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 47 0.59
40 33 0.41
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACATTACACATATAATCACATAACA
Found at i:31008104 original size:27 final size:27
Alignment explanation
Indices: 31008051--31008177 Score: 87
Period size: 27 Copynumber: 4.8 Consensus size: 27
31008041 ACATAAGGCC
* * * * *
31008051 ATAACAGTCATTTCATCTTCTAGGGGT
1 ATAACAGTCATTTTACCCTATAAGGGT
31008078 ATAACAGTCATTTTACCCTATAAGGGT
1 ATAACAGTCATTTTACCCTATAAGGGT
** * * *
31008105 ATTTCGGTTATTTTACCCTATAGGGGT
1 ATAACAGTCATTTTACCCTATAAGGGT
**** * *
31008132 ATTTTGGTTATTTTACCCTATGAGGG-
1 ATAACAGTCATTTTACCCTATAAGGGT
*
31008158 -TAACAATCATTTTACCCTAT
1 ATAACAGTCATTTTACCCTAT
31008178 GGGGTATTTC
Statistics
Matches: 81, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
25 14 0.17
27 67 0.83
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (27 bp):
ATAACAGTCATTTTACCCTATAAGGGT
Found at i:31008129 original size:54 final size:54
Alignment explanation
Indices: 31008084--31008268 Score: 225
Period size: 54 Copynumber: 3.5 Consensus size: 54
31008074 GGGTATAACA
* * * *
31008084 GTCATTTTACCCTATAAGGGTATTTCGGTTATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
* * *
31008138 GTTATTTTACCCTATGAGGGTA--ACAATCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
* * *
31008189 ATCATTTTACTCTATG-GAGGTATTTCGATCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGAG-GGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
*
31008243 GTCATTTTACCCTATGGGGGGTATTT
1 GTCATTTTACCCTAT-GAGGGTATTT
31008269 TGGTTATTTT
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
50 1 0.01
51 27 0.25
52 14 0.13
53 16 0.15
54 43 0.39
55 8 0.07
56 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
Found at i:31008237 original size:78 final size:79
Alignment explanation
Indices: 31008079--31008234 Score: 210
Period size: 78 Copynumber: 2.0 Consensus size: 79
31008069 TCTAGGGGTA
* * * * * *
31008079 TAACAGTCATTTTACCCTATAAGGGTATTTCGGTTATTTTACCCTATAGGGGTATTTTGGTTATT
1 TAACAATCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATT
31008144 TTACCCTATGAGGG
66 TTACCCTATGAGGG
* *
31008158 TAACAATCATTTTACCCTAT-GGGGTATTTCGATCATTTTACTCTAT-GGAGGTATTTCGATCAT
1 TAACAATCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATAGG-GGTATTTCGATCAT
31008221 TTTACCCTAT-AGGG
65 TTTACCCTATGAGGG
31008235 GTATTTTGGT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 6 0.09
78 43 0.63
79 19 0.28
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (79 bp):
TAACAATCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATT
TTACCCTATGAGGG
Found at i:31008284 original size:27 final size:27
Alignment explanation
Indices: 31008084--31008281 Score: 204
Period size: 27 Copynumber: 7.4 Consensus size: 27
31008074 GGGTATAACA
**
31008084 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
31008111 GTTATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
31008138 GTTATTTTACCCTATGAGGGTA--ACA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
31008163 ATCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
31008189 ATCATTTTACTCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
31008216 ATCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
31008243 GTCATTTTACCCTATGGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
*
31008271 GTTATTTTACC
1 GTCATTTTACC
31008282 TATTTTGGGG
Statistics
Matches: 145, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.03
25 13 0.09
26 15 0.10
27 91 0.63
28 21 0.14
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:31023704 original size:15 final size:16
Alignment explanation
Indices: 31023677--31023715 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
31023667 ATGGGTTAGC
31023677 TAAATCAAGTTCC-CA
1 TAAATCAAGTTCCACA
* *
31023692 TAATTCAATTTCCACA
1 TAAATCAAGTTCCACA
31023708 TAAATCAA
1 TAAATCAA
31023716 AGAAAAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.44, C:0.23, G:0.03, T:0.31
Consensus pattern (16 bp):
TAAATCAAGTTCCACA
Found at i:31027703 original size:27 final size:27
Alignment explanation
Indices: 31027673--31027988 Score: 273
Period size: 27 Copynumber: 11.7 Consensus size: 27
31027663 GCAAGGTTCG
*
31027673 CCACAAGGGCTTTTCTTTCATATTTCA
1 CCACAAAGGCTTTTCTTTCATATTTCA
* **
31027700 CCACAAGGGCTTTTCTTTCATATTTTT
1 CCACAAAGGCTTTTCTTTCATATTTCA
*
31027727 CCACAAAGGC-TTTCTTTTCATATTTCG
1 CCACAAAGGCTTTTC-TTTCATATTTCA
* * * *
31027754 CCACAAAAGTTTTTCTTTCATGTTTTA
1 CCACAAAGGCTTTTCTTTCATATTTCA
* ** **
31027781 TCACAAAGAATTTTCTTTCATATTTTG
1 CCACAAAGGCTTTTCTTTCATATTTCA
*
31027808 CTACAAAGG-TTTTCCTTTCATATTTCA
1 CCACAAAGGCTTTT-CTTTCATATTTCA
* *
31027835 CCATAAAGGTTTTTCTTTCATATTTCA
1 CCACAAAGGCTTTTCTTTCATATTTCA
* * *
31027862 CCACAAAGGATTTTCTTTCAAGATTT-T
1 CCACAAAGGCTTTTCTTTC-ATATTTCA
* *
31027889 CCACAAAGACTTTTCTTTCATGTTT-A
1 CCACAAAGGCTTTTCTTTCATATTTCA
* * * *
31027915 GCAACAAAAGCTTTTCTTTCATGGTTT-T
1 -CCACAAAGGCTTTTCTTTCAT-ATTTCA
* * *
31027943 CCACAAAGGCTTTTCTTTTATTTTTCT
1 CCACAAAGGCTTTTCTTTCATATTTCA
* *
31027970 CCACAAAGGTTTTTATTTC
1 CCACAAAGGCTTTTCTTTC
31027989 CTGTCATGTT
Statistics
Matches: 238, Mismatches: 43, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
26 15 0.06
27 206 0.87
28 17 0.07
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (27 bp):
CCACAAAGGCTTTTCTTTCATATTTCA
Found at i:31027754 original size:81 final size:81
Alignment explanation
Indices: 31027669--31027978 Score: 322
Period size: 81 Copynumber: 3.8 Consensus size: 81
31027659 CTTTGCAAGG
** * *
31027669 TTCGCCACAAGGGCTTTTCTTTCATATTTCACCACAAGGGCTTTTCTTTCATATTTTTCCACAAA
1 TTCGCCACAAAAGCTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCATATTTTTCCACAAA
31027734 GGCTTTCTTTTCATAT
66 GGCTTTCTTTTCATAT
* * * * * * *
31027750 TTCGCCACAAAAGTTTTTCTTTCATGTTTTATCACAAAGAATTTTCTTTCATATTTTGCTACAAA
1 TTCGCCACAAAAGCTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCATATTTTTCCACAAA
* *
31027815 GGTTTTCCTTTCATAT
66 GGCTTTCTTTTCATAT
* * * * *
31027831 TTCACCATAAAGGTTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCA-AGATTTTCCACAA
1 TTCGCCACAAAAGCTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCATA-TTTTTCCACAA
* *
31027895 AGACTTT-TCTTTCATGT
65 AGGCTTTCT-TTTCATAT
* * * * * *
31027912 TTAGCAACAAAAGCTTTTCTTTCATGGTTT-TCCACAAAGGCTTTTCTTTTAT-TTTTCTCCACA
1 TTCGCCACAAAAGCTTTTCTTTCAT-ATTTCACCACAAAGGATTTTCTTTCATATTTT-TCCACA
31027975 AAGG
64 AAGG
31027979 TTTTTATTTC
Statistics
Matches: 185, Mismatches: 39, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
80 4 0.02
81 178 0.96
82 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (81 bp):
TTCGCCACAAAAGCTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCATATTTTTCCACAAA
GGCTTTCTTTTCATAT
Found at i:31056701 original size:3 final size:3
Alignment explanation
Indices: 31056695--31056775 Score: 76
Period size: 3 Copynumber: 27.0 Consensus size: 3
31056685 AAAGTAGTAG
* * *
31056695 TAA TAA TAA TGA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
31056744 -AA TAT TAA -AC TAAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
31056776 CACAAAAAGG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
2 3 0.05
3 59 0.89
4 4 0.06
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:31063343 original size:21 final size:21
Alignment explanation
Indices: 31063294--31063344 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
31063284 TTAGGAGCAC
*
31063294 GGGCGTGTGGAATAGCCACAT
1 GGGCGTGTGGAATAACCACAT
** * *
31063315 AAGTGTGTGGAATAACCTCAT
1 GGGCGTGTGGAATAACCACAT
31063336 GGGCGTGTG
1 GGGCGTGTG
31063345 TATCGATCTC
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.24
Consensus pattern (21 bp):
GGGCGTGTGGAATAACCACAT
Found at i:31064789 original size:62 final size:62
Alignment explanation
Indices: 31064692--31064817 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
31064682 CAAAATGCTT
*
31064692 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTAGCTAGTCATGCAACATAAGTCCAA
1 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
31064754 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
1 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
31064816 TA
1 TA
31064818 CCATTCATTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (62 bp):
TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
Found at i:31065174 original size:22 final size:22
Alignment explanation
Indices: 31065140--31065233 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 22
31065130 AGCCTGATAC
*
31065140 GCACAAAGCCTGAATAACACCA
1 GCACTAAGCCTGAATAACACCA
* * *
31065162 GCACTAAGTCTGAATAATACCG
1 GCACTAAGCCTGAATAACACCA
*
31065184 GCACTAAGCCT--AT-A-A--G
1 GCACTAAGCCTGAATAACACCA
* *
31065200 GCACAAAGCCTGAATAACACCG
1 GCACTAAGCCTGAATAACACCA
*
31065222 GCACTAAACCTG
1 GCACTAAGCCTG
31065234 CAGGCACAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
16 11 0.19
18 3 0.05
19 2 0.03
20 3 0.05
22 39 0.67
ACGTcount: A:0.39, C:0.29, G:0.17, T:0.15
Consensus pattern (22 bp):
GCACTAAGCCTGAATAACACCA
Found at i:31065222 original size:38 final size:37
Alignment explanation
Indices: 31065162--31065255 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 37
31065152 AATAACACCA
* * * * *
31065162 GCACTAAGTCTGAATAATACCGGCACTAAGCCTATAAG
1 GCACAAAGCCTGAATAACACCGGCACTAAACCT-GAAG
*
31065200 GCACAAAGCCTGAATAACACCGGCACTAAACCTGCAG
1 GCACAAAGCCTGAATAACACCGGCACTAAACCTGAAG
*
31065237 GCACAAAGCCCGAATAACA
1 GCACAAAGCCTGAATAACA
31065256 ATATAATTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 20 0.41
38 29 0.59
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.14
Consensus pattern (37 bp):
GCACAAAGCCTGAATAACACCGGCACTAAACCTGAAG
Found at i:31065252 original size:37 final size:38
Alignment explanation
Indices: 31065173--31065255 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 38
31065163 CACTAAGTCT
* * * *
31065173 GAATAATACCGGCACTAAGCCTATAAGGCACAAAGCCT
1 GAATAACACCGGCACTAAACCTAGAAGGCACAAAGCCC
*
31065211 GAATAACACCGGCACTAAACCT-GCAGGCACAAAGCCC
1 GAATAACACCGGCACTAAACCTAGAAGGCACAAAGCCC
31065248 GAATAACA
1 GAATAACA
31065256 ATATAATTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 20 0.50
38 20 0.50
ACGTcount: A:0.41, C:0.29, G:0.18, T:0.12
Consensus pattern (38 bp):
GAATAACACCGGCACTAAACCTAGAAGGCACAAAGCCC
Found at i:31068707 original size:14 final size:15
Alignment explanation
Indices: 31068682--31068726 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
31068672 AAAAGTTTAG
31068682 TGTTGAAAAATTAAA
1 TGTTGAAAAATTAAA
* *
31068697 TGTTGAAAATTTAAG
1 TGTTGAAAAATTAAA
31068712 T-TTGAAAAATTAAA
1 TGTTGAAAAATTAAA
31068726 T
1 T
31068727 AATCATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (15 bp):
TGTTGAAAAATTAAA
Found at i:31075461 original size:2 final size:2
Alignment explanation
Indices: 31075454--31075484 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
31075444 TCTATATGTA
*
31075454 TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
31075485 TGGGTTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:31076527 original size:26 final size:26
Alignment explanation
Indices: 31076491--31076588 Score: 126
Period size: 26 Copynumber: 3.7 Consensus size: 26
31076481 GAACACGTCA
31076491 AAAATGGAAGCCTTTGTGGCGTATCT
1 AAAATGGAAGCCTTTGTGGCGTATCT
*
31076517 AAAATGGAAGCCTTTGTGGC-AATCT
1 AAAATGGAAGCCTTTGTGGCGTATCT
* * *
31076542 AGAAAATGGAAGTCTTAGTTGCGTATCT
1 --AAAATGGAAGCCTTTGTGGCGTATCT
*
31076570 AAAATGGAAACCTTTGTGG
1 AAAATGGAAGCCTTTGTGG
31076589 TAATCTAAGA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.07
26 35 0.58
27 17 0.28
28 4 0.07
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (26 bp):
AAAATGGAAGCCTTTGTGGCGTATCT
Found at i:31076571 original size:53 final size:54
Alignment explanation
Indices: 31076491--31076608 Score: 175
Period size: 53 Copynumber: 2.2 Consensus size: 54
31076481 GAACACGTCA
* *
31076491 AAAATGGAAGCCTTTGTGGCGTATCTAAAATGGAAGCCTTTGTGGCAATCT-AG
1 AAAATGGAAGCCTTAGTGGCGTATCTAAAATGGAAACCTTTGTGGCAATCTAAG
* * *
31076544 AAAATGGAAGTCTTAGTTGCGTATCTAAAATGGAAACCTTTGTGGTAATCTAAG
1 AAAATGGAAGCCTTAGTGGCGTATCTAAAATGGAAACCTTTGTGGCAATCTAAG
*
31076598 AAAATGAAAGC
1 AAAATGGAAGC
31076609 ATTTGAGGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 46 0.81
54 11 0.19
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (54 bp):
AAAATGGAAGCCTTAGTGGCGTATCTAAAATGGAAACCTTTGTGGCAATCTAAG
Found at i:31076613 original size:28 final size:28
Alignment explanation
Indices: 31076582--31076636 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
31076572 AATGGAAACC
*
31076582 TTTGTGGTAATCTAAGAAAATGAAAGCA
1 TTTGAGGTAATCTAAGAAAATGAAAGCA
*
31076610 TTTGAGGTAATCTAAGAAAATGGAAGC
1 TTTGAGGTAATCTAAGAAAATGAAAGC
31076637 CTTCGTGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (28 bp):
TTTGAGGTAATCTAAGAAAATGAAAGCA
Found at i:31086765 original size:48 final size:48
Alignment explanation
Indices: 31086679--31086774 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
31086669 TAGGTAGAGG
* *
31086679 TGACAAAGTCTAGTCCTAGAAGGGGTTACTACTCCCCCTATCATACAA
1 TGACAAAGCCTAGTCCTAGAAGGGGTTACCACTCCCCCTATCATACAA
* *
31086727 TGACAAAGCCTAGTCCTAGAAGGGGTTGCCAC-CGCCCCTATCGTACAA
1 TGACAAAGCCTAGTCCTAGAAGGGGTTACCACTC-CCCCTATCATACAA
31086775 ACTCCCTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (48 bp):
TGACAAAGCCTAGTCCTAGAAGGGGTTACCACTCCCCCTATCATACAA
Found at i:31089449 original size:101 final size:101
Alignment explanation
Indices: 31089331--31089531 Score: 384
Period size: 101 Copynumber: 2.0 Consensus size: 101
31089321 TAACTTCTCA
31089331 CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
1 CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
* *
31089396 TTACTTTTTTTATTTACCAAAATAATACCAAAAAAG
66 TTACTTTTCTTATTTACCAAAATAATACAAAAAAAG
31089432 CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
1 CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
31089497 TTACTTTTCTTATTTACCAAAATAATACAAAAAAA
66 TTACTTTTCTTATTTACCAAAATAATACAAAAAAA
31089532 ACAAAAAAGT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.33
Consensus pattern (101 bp):
CAACATTTTTTTGAGGGTCTTTTACCAAAATATTACAAAAAAATAAAAAAAATATCAAAATAATA
TTACTTTTCTTATTTACCAAAATAATACAAAAAAAG
Found at i:31089661 original size:11 final size:11
Alignment explanation
Indices: 31089641--31089705 Score: 64
Period size: 11 Copynumber: 6.1 Consensus size: 11
31089631 GCTGGTGGGT
31089641 GGAGAAGGAAA
1 GGAGAAGGAAA
*
31089652 GGAGAGGGAAA
1 GGAGAAGGAAA
31089663 GGAGAA-GAAA
1 GGAGAAGGAAA
* *
31089673 GAAAGAAGGGAA
1 G-GAGAAGGAAA
*
31089685 -GAAAAGGAAA
1 GGAGAAGGAAA
31089695 GGAGAA-GAAA
1 GGAGAAGGAAA
31089705 G
1 G
31089706 AAAGAAAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
10 17 0.40
11 23 0.53
12 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (11 bp):
GGAGAAGGAAA
Found at i:31089710 original size:24 final size:24
Alignment explanation
Indices: 31089683--31089761 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
31089673 GAAAGAAGGG
31089683 AAGAAAAGGAAAGGAGAAGAAAGA
1 AAGAAAAGGAAAGGAGAAGAAAGA
*
31089707 AAGAAAAAGAAAGGAGAAG-AAGA
1 AAGAAAAGGAAAGGAGAAGAAAGA
** *
31089730 AGAGGGAAGG-AAGGAAAAAGAAAGA
1 A-AGAAAAGGAAAGG-AGAAGAAAGA
31089755 AAGAAAA
1 AAGAAAA
31089762 AGGTAATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 9 0.20
24 31 0.69
25 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
AAGAAAAGGAAAGGAGAAGAAAGA
Found at i:31089738 original size:13 final size:13
Alignment explanation
Indices: 31089659--31089730 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 13
31089649 AAAGGAGAGG
31089659 GAAAGGAGAAGAAA
1 GAAAGGAGAAG-AA
*
31089673 GAAAGAAGGGAAGAAAA
1 GAAAG--GAGAAG--AA
31089690 GGAAAGGAGAAGAAA
1 -GAAAGGAGAAG-AA
31089705 GAAA-GA-AA-AA
1 GAAAGGAGAAGAA
31089715 GAAAGGAGAAGAA
1 GAAAGGAGAAGAA
31089728 GAA
1 GAA
31089731 GAGGGAAGGA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
10 6 0.12
11 2 0.04
12 4 0.08
13 7 0.14
14 9 0.18
15 3 0.06
16 10 0.20
17 3 0.06
18 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
GAAAGGAGAAGAA
Found at i:31090301 original size:12 final size:13
Alignment explanation
Indices: 31090271--31090321 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
31090261 TAAACCATTT
* *
31090271 CAAACATAATTTA
1 CAAAAATAATATA
*
31090284 CTAAAATAATATA
1 CAAAAATAATATA
*
31090297 -AAAAATAAAATA
1 CAAAAATAATATA
*
31090309 CGAAAATAATATA
1 CAAAAATAATATA
31090322 TTTTTATTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (13 bp):
CAAAAATAATATA
Found at i:31090385 original size:154 final size:154
Alignment explanation
Indices: 31090087--31091153 Score: 1177
Period size: 154 Copynumber: 7.0 Consensus size: 154
31090077 AAAAAATTGT
* *
31090087 ATTTTTAAAAAACA-AACTAAATTAA-T-AAATTTAAAACATAATGTACTAAAATAATGTAAAAT
1 ATTTATAAAAAACACAA-TAAATTAATTAAAATTTCAAACATAATGTACTAAAATAATGTAAAAT
* * *
31090149 AATAAAATTAGAAAAT-ATGATATTTTTT-AAAGTAATAAAATGCAGAGAAAAAAATACGAACAA
65 AATAAAAGTAGAAAATAAT-ATATTTTTTAAAAGTAATAAAATTC-GGGAAAAAAATACGAACAA
* *
31090212 AGGGCAGAAGTAA-GGTTTTTTACTAA
128 AGGGCCGAAATAAGGGTTTTTTACTAA
* * *
31090238 ATTTA-AAAAAATA-AAT-AATTAATTAAACCATTTCAAACATAATTTACTAAAATAATATAAAA
1 ATTTATAAAAAACACAATAAATTAATTAAA--ATTTCAAACATAATGTACTAAAATAATGTAAAA
* *
31090300 -AATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAGC
64 TAATAAAAGTA-GAAAATAATATA-TTTT-TTAAAAGTAATAAAATTCGGGAAAAAAATACGAAC
* *
31090363 AAATGGTCGAAATAAGGGTTTTTT--TAA
126 AAAGGGCCGAAATAAGGGTTTTTTACTAA
* * * *
31090390 ATTTATTTAAAAAACACACTAAATTTATTTAAATTTCAAGCATAATGTACTAAAATAATGTAAAA
1 ATTTA--TAAAAAACACAATAAATTAATTAAAATTTCAAACATAATGTACTAAAATAATGTAAAA
* * * *
31090455 TAAGAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAATACGAACAAA
64 TAATAAAAGTAGAAAATAATATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAA
31090520 GGGCCGAAATAAGGGGTTTTTTTTACTAA
129 GGGCCGAAATAA-GGG--TTTTTTACTAA
* * * *
31090549 A-TTAAAAAAAACAGACTTAAA-TAA-T-ACATTT------TAA---ACTAAAATAATGTAAAA-
1 ATTTATAAAAAACACA-ATAAATTAATTAAAATTTCAAACATAATGTACTAAAATAATGTAAAAT
* * *
31090600 AATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAAATCGGGAAAAAAATACGAGCA
65 AATAAAAGTA-GAAAATAATATA-TTTT-TTAAAAGTAATAAAATTCGGGAAAAAAATACGAACA
*
31090664 AAGGGCCGAAATAAGGGTTTTTT-TTAA
127 AAGGGCCGAAATAAGGGTTTTTTACTAA
* * * *
31090691 ATTTATTTAAAAAACACACTAAATTTATTTAAATTTCAAGCATAATGTACTAAAATAATGTAAAA
1 ATTTA--TAAAAAACACAATAAATTAATTAAAATTTCAAACATAATGTACTAAAATAATGTAAAA
*
31090756 TAATAAAAGTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTC-GG-AAAAAATACGAACAAA
64 TAATAAAAGTAGAAAATAATATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAA
31090819 GGGCCGAAATAAGGGTTTTTTACTAA
129 GGGCCGAAATAAGGGTTTTTTACTAA
* * * * * *
31090845 A-TTA-AAAAAATAGACTTAATTAA-T-ACATTTCAAACATAATGTACTAAAATAAAGTAAAATA
1 ATTTATAAAAAACACAATAAATTAATTAAAATTTCAAACATAATGTACTAAAATAATGTAAAATA
* *
31090906 ATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAGCAA
66 ATAAAAGTA-GAAAATAATATA-TTTT-TTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAA
* *
31090970 ATGGTCGAAATAAGGGTTTTTT--TAA
128 AGGGCCGAAATAAGGGTTTTTTACTAA
* * * *
31090995 ATTTATTTAAAAAACACACTAAATTTATTTAAATTTCAAGCATAATGTACTAAAATAATGTAAAA
1 ATTTA--TAAAAAACACAATAAATTAATTAAAATTTCAAACATAATGTACTAAAATAATGTAAAA
* * *
31091060 TAATAAAAGTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCAGGAAAAAAATACAAACAAA
64 TAATAAAAGTAGAAAATAATATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAA
31091125 GGGCCGAAATAA-GGTTTTTTACTAA
129 GGGCCGAAATAAGGGTTTTTTACTAA
31091150 ATTT
1 ATTT
31091154 TTTTGAAGTT
Statistics
Matches: 784, Mismatches: 74, Indels: 112
0.81 0.08 0.12
Matches are distributed among these distances:
142 4 0.01
143 11 0.01
144 21 0.03
145 35 0.04
146 47 0.06
147 7 0.01
148 60 0.08
149 7 0.01
150 49 0.06
151 25 0.03
152 78 0.10
153 78 0.10
154 137 0.17
155 73 0.09
156 102 0.13
157 41 0.05
158 5 0.01
159 4 0.01
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (154 bp):
ATTTATAAAAAACACAATAAATTAATTAAAATTTCAAACATAATGTACTAAAATAATGTAAAATA
ATAAAAGTAGAAAATAATATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGG
GCCGAAATAAGGGTTTTTTACTAA
Found at i:31093994 original size:43 final size:42
Alignment explanation
Indices: 31093931--31094056 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 42
31093921 AGAACTCCGA
*
31093931 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTCATGTAAGACCACGTCTGGGACGT-GGCATCG-C
* *
31093975 T-TGTGTTTTCCTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTCATGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* *
31094017 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGTTTTCATGTAAGACCACGTCTGGGACG-TGGCAT
31094057 TGTACTAGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 3 0.04
43 65 0.90
44 4 0.06
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (42 bp):
TATGTGTTTTCATGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:31094724 original size:14 final size:15
Alignment explanation
Indices: 31094705--31094736 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
31094695 TTTAATCATG
31094705 GGTTAGTATTT-TAT
1 GGTTAGTATTTATAT
31094719 GGTTAGTATTTATAT
1 GGTTAGTATTTATAT
31094734 GGT
1 GGT
31094737 AATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (15 bp):
GGTTAGTATTTATAT
Found at i:31095053 original size:23 final size:22
Alignment explanation
Indices: 31094988--31095155 Score: 92
Period size: 23 Copynumber: 7.2 Consensus size: 22
31094978 GAGTAAATGA
31094988 ATGTATATGCTGTCAAATTTTG
1 ATGTATATGCTGTCAAATTTTG
* ** *
31095010 ATGTACAAATGCAATCCAATTATAT-
1 ATGT--ATATGCTGTCAAATT-T-TG
31095035 ATGTATATGCTGTCAAATTTTG
1 ATGTATATGCTGTCAAATTTTG
*
31095057 ATGTATAAATG-TAGTCCAATTATAT-
1 ATGTAT--ATGCT-GTCAAATT-T-TG
*
31095082 ATGTATATGTTGTCAAATTTTG
1 ATGTATATGCTGTCAAATTTTG
* * * *
31095104 ATGAACAAATGCAGTCCAATTATAT-
1 ATG--TATATGCTGTCAAATT-T-TG
*
31095129 ATGTATTTGCTGTCAAATTTTG
1 ATGTATATGCTGTCAAATTTTG
31095151 ATGTA
1 ATGTA
31095156 CAAATGTAGT
Statistics
Matches: 109, Mismatches: 20, Indels: 34
0.67 0.12 0.21
Matches are distributed among these distances:
21 3 0.03
22 21 0.19
23 33 0.30
24 33 0.30
25 16 0.15
26 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (22 bp):
ATGTATATGCTGTCAAATTTTG
Found at i:31095057 original size:47 final size:47
Alignment explanation
Indices: 31094988--31095180 Score: 323
Period size: 47 Copynumber: 4.1 Consensus size: 47
31094978 GAGTAAATGA
*
31094988 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAATCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
31095035 ATGTATATGCTGTCAAATTTTGATGTATAAATGTAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
31095082 ATGTATATGTTGTCAAATTTTGATGAACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
31095129 ATGTATTTGCTGTCAAATTTTGATGTACAAATGTAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
31095176 ATGTA
1 ATGTA
31095181 CAAGATAAGT
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
Found at i:31095374 original size:22 final size:22
Alignment explanation
Indices: 31095349--31095417 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
31095339 GAGTAAATGA
31095349 ATGTATATGCTGT-CAAATTTTG
1 ATGTATATG-TGTCCAAATTTTG
31095371 ATGTATAAATGTAGTCCAAATTTTG
1 ATGTAT--ATGT-GTCCAAATTTTG
*
31095396 -TATATATGGTGTCCAAATTTTG
1 ATGTATAT-GTGTCCAAATTTTG
31095418 GTGTGAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
22 20 0.49
23 3 0.07
24 9 0.22
25 9 0.22
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (22 bp):
ATGTATATGTGTCCAAATTTTG
Found at i:31101951 original size:43 final size:42
Alignment explanation
Indices: 31101888--31102013 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 42
31101878 AGAACTCCGA
*
31101888 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTCATGTAAGACCACGTCTGGGACGT-GGCATCG-C
* *
31101932 T-TGTGTTTTCCTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTCATGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* *
31101974 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGTTTTCATGTAAGACCACGTCTGGGACG-TGGCAT
31102014 TGTACTAGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 3 0.04
43 65 0.90
44 4 0.06
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (42 bp):
TATGTGTTTTCATGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:31102684 original size:14 final size:15
Alignment explanation
Indices: 31102660--31102694 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
31102650 TACTTTAATC
31102660 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
31102675 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
31102690 ATGGT
1 ATGGT
31102695 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:31103248 original size:47 final size:47
Alignment explanation
Indices: 31102946--31103221 Score: 525
Period size: 47 Copynumber: 5.9 Consensus size: 47
31102936 GAGTAAATGA
31102946 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
31102993 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
31103040 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
31103087 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
31103134 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* * *
31103181 ATGTATATGCTGTCAAATTTTGATGTATAAATGTAGTCCAA
1 ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAA
31103222 ATTTTGTATA
Statistics
Matches: 226, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 226 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (47 bp):
ATGTATATGTTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
Found at i:31104978 original size:9 final size:9
Alignment explanation
Indices: 31104964--31105029 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
31104954 TTTGGTTAAA
31104964 AATTACCCG
1 AATTACCCG
31104973 AATTACCCG
1 AATTACCCG
* *
31104982 -ATTAACTG
1 AATTACCCG
*
31104990 AATTAACCG
1 AATTACCCG
**
31104999 AATTAACCAAA
1 AATT-ACC-CG
*
31105010 AATTACCCA
1 AATTACCCG
31105019 AATTACCCG
1 AATTACCCG
31105028 AA
1 AA
31105030 AATTACCCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 6 0.13
9 31 0.67
10 5 0.11
11 4 0.09
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:31104992 original size:17 final size:18
Alignment explanation
Indices: 31104972--31105005 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31104962 AAAATTACCC
*
31104972 GAATTACCCG-ATTAACT
1 GAATTAACCGAATTAACT
31104989 GAATTAACCGAATTAAC
1 GAATTAACCGAATTAAC
31105006 CAAAAATTAC
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:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (18 bp):
GAATTAACCGAATTAACT
Found at i:31105019 original size:11 final size:11
Alignment explanation
Indices: 31104999--31105042 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
31104989 GAATTAACCG
*
31104999 AATTAACCAAA
1 AATTACCCAAA
31105010 AATTACCC--A
1 AATTACCCAAA
*
31105019 AATTACCCGAA
1 AATTACCCAAA
31105030 AATTACCCAAA
1 AATTACCCAAA
31105041 AA
1 AA
31105043 GTTCGGTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 9 0.31
11 20 0.69
ACGTcount: A:0.55, C:0.25, G:0.02, T:0.18
Consensus pattern (11 bp):
AATTACCCAAA
Found at i:31105022 original size:20 final size:20
Alignment explanation
Indices: 31104999--31105040 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
31104989 GAATTAACCG
31104999 AATTAACCAAAAATTACCCA
1 AATTAACCAAAAATTACCCA
* *
31105019 AATTACCCGAAAATTACCCA
1 AATTAACCAAAAATTACCCA
31105039 AA
1 AA
31105041 AAGTTCGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.19
Consensus pattern (20 bp):
AATTAACCAAAAATTACCCA
Found at i:31107566 original size:26 final size:27
Alignment explanation
Indices: 31107537--31107602 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
31107527 TAACTAACAC
* *
31107537 AATAATAATAA-TA-GTTTTATACTTAA
1 AATAATAATAACTAGGGTTT-TACTAAA
*
31107563 AATAATACTAACTAGGGTTTTACTAAA
1 AATAATAATAACTAGGGTTTTACTAAA
31107590 AATAATAACTAAC
1 AATAATAA-TAAC
31107603 AATAATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 10 0.30
27 15 0.45
28 8 0.24
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (27 bp):
AATAATAATAACTAGGGTTTTACTAAA
Found at i:31107640 original size:22 final size:22
Alignment explanation
Indices: 31107596--31107641 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
31107586 TAAAAATAAT
*
31107596 AACTAACAATAATATAATGTAA
1 AACTAACAATAATATAATCTAA
*
31107618 AACTAACAATCATACTAA-CTAA
1 AACTAACAATAATA-TAATCTAA
31107640 AA
1 AA
31107642 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.24
Consensus pattern (22 bp):
AACTAACAATAATATAATCTAA
Found at i:31109938 original size:88 final size:87
Alignment explanation
Indices: 31109717--31110173 Score: 452
Period size: 88 Copynumber: 5.0 Consensus size: 87
31109707 CCGATCCAAA
* * * *
31109717 CCCTCAAAATTCTTCAAAAAAAAGTAATTAAGCCCCTGCTCTTTTTTTCCACTCAATTGGGTACT
1 CCCTC-AAATTTTTCAAAAAAAAGAAATTAAGCCACT--ACTTTTTTT-CACTCAATTGGGTACT
* * *
31109782 TGAATTTTCAAAATGCATGAAAAAGA
62 TGAACTTTCAAAATGCATCAAAAAGG
* *
31109808 CCCTGAAATTTTTCAAAAAAAA-ACAATTAAGCCCCTACTTTTTTT-ACTCAATTGGGTACTTGA
1 CCCTCAAATTTTTCAAAAAAAAGA-AATTAAGCCACTACTTTTTTTCACTCAATTGGGTACTTGA
*
31109871 GCTTTCAAAATGCATCAAAAAGG
65 ACTTTCAAAATGCATCAAAAAGG
* * * * *
31109894 CCCTCAATTTTTTTTCAAAATAAATAAATTAAGCCACTGCTTTTTTTTTGCACTCAATTAGGTAC
1 CCCTCAA--ATTTTTCAAAAAAAAGAAATTAAGCCACTAC--TTTTTTT-CACTCAATTGGGTAC
* * *
31109959 TTGAACTTTTAAAATACATAAAAAAAAGG
61 TTGAACTTTCAAAATGCAT--CAAAAAGG
* * *
31109988 CCATCAAAATTTTCAAAAAAAAGCAATTAAGCCCCTACGTACTTTCTTTTTGCACTCAATTGGGT
1 CCCTCAAATTTTTCAAAAAAAAGAAATTAAG--CC-AC-TAC-TT-TTTTT-CACTCAATTGGGT
*
31110053 ACTTAAACTTTCAAAATGCATCAAAAAGG
59 ACTTGAACTTTCAAAATGCATCAAAAAGG
* * * **
31110082 CCCTAAAATTTTTTCAAAATAAAGCAATTAAGCC-CCCCTTTTTTTGCACTCAATTGGGTACTTG
1 CCCTCAAA-TTTTTCAAAAAAAAGAAATTAAGCCACTACTTTTTTT-CACTCAATTGGGTACTTG
*
31110146 AACTGTCAAAATGCATCAAAAAGG
64 AACTTTCAAAATGCATCAAAAAGG
31110170 CCCT
1 CCCT
31110174 TTGACCGTTA
Statistics
Matches: 312, Mismatches: 38, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
86 43 0.14
88 83 0.27
89 3 0.01
90 36 0.12
91 5 0.02
92 48 0.15
93 2 0.01
94 28 0.09
95 26 0.08
96 38 0.12
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (87 bp):
CCCTCAAATTTTTCAAAAAAAAGAAATTAAGCCACTACTTTTTTTCACTCAATTGGGTACTTGAA
CTTTCAAAATGCATCAAAAAGG
Found at i:31110570 original size:18 final size:20
Alignment explanation
Indices: 31110549--31110601 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
31110539 TGGTACGATA
31110549 AATTTTAT-ATTTT-TTACG
1 AATTTTATAATTTTCTTACG
31110567 AATTTTATAATTTTCTTACG
1 AATTTTATAATTTTCTTACG
* *
31110587 ACTTTATAAAATTTT
1 AATTT-TATAATTTT
31110602 ATAATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 9 0.30
21 8 0.27
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (20 bp):
AATTTTATAATTTTCTTACG
Found at i:31110592 original size:19 final size:19
Alignment explanation
Indices: 31110552--31110595 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
31110542 TACGATAAAT
*
31110552 TTTAT-ATTTTTTACGAAT
1 TTTATAATTTTTTACGAAC
31110570 TTTATAATTTTCTTACG-AC
1 TTTATAATTTT-TTACGAAC
31110589 TTTATAA
1 TTTATAA
31110596 AATTTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTTTACGAAC
Found at i:31110662 original size:20 final size:22
Alignment explanation
Indices: 31110630--31110670 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
31110620 TCTATATATT
31110630 TTATAATTTTTTTTAC-AATTC
1 TTATAATTTTTTTTACTAATTC
31110651 TTATAA-TTTTTTTACTAATT
1 TTATAATTTTTTTTACTAATT
31110671 TAAATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATAATTTTTTTTACTAATTC
Found at i:31110833 original size:30 final size:31
Alignment explanation
Indices: 31110768--31110853 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 31
31110758 CGACTTTATA
* *
31110768 AAATTTTAT-ATTTTTTTCTATATTTCTATGT
1 AAATTTTATAATTTTTTACTA-ATTTTTATGT
31110799 --ATTTTATAATTTTTTACTAATTTTTA-GT
1 AAATTTTATAATTTTTTACTAATTTTTATGT
*
31110827 AAATTTTA-AATATTTTTA-TATTTTTTA
1 AAATTTTATAAT-TTTTTACTAATTTTTA
31110854 ATTAAAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 2 0.04
29 24 0.50
30 22 0.46
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (31 bp):
AAATTTTATAATTTTTTACTAATTTTTATGT
Found at i:31110865 original size:30 final size:29
Alignment explanation
Indices: 31110801--31110865 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
31110791 TTCTATGTAT
*
31110801 TTTATAATTTTTTACTAATTTTTAGTAAAT
1 TTTA-AATTTTTTACTAATTTTTAGTAAAA
* *
31110831 TTTAAATATTTTTA-TATTTTTTAATTAAAA
1 TTTAAAT-TTTTTACTAATTTTT-AGTAAAA
31110861 TTTAA
1 TTTAA
31110866 TAACTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTAAATTTTTTACTAATTTTTAGTAAAA
Found at i:31110867 original size:29 final size:29
Alignment explanation
Indices: 31110805--31110867 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
31110795 ATGTATTTTA
*
31110805 TAAT-TTTTTACTAATTTTTAGTAAATTT
1 TAATATTTTTACTAATTTTTAGTAAAATT
* *
31110833 TAAATATTTTTA-TATTTTTTAATTAAAATT
1 T-AATATTTTTACTAATTTTT-AGTAAAATT
31110863 TAATA
1 TAATA
31110868 ACTTATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 14 0.48
30 14 0.48
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (29 bp):
TAATATTTTTACTAATTTTTAGTAAAATT
Found at i:31116611 original size:21 final size:23
Alignment explanation
Indices: 31116578--31116620 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
31116568 ATATATATTT
*
31116578 TATATAAAGAAATATGTATATAC
1 TATATAAAGAAATACGTATATAC
*
31116601 TATAT-AA-AAATGCGTATATA
1 TATATAAAGAAATACGTATATA
31116621 AGTTTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (23 bp):
TATATAAAGAAATACGTATATAC
Found at i:31118534 original size:89 final size:89
Alignment explanation
Indices: 31118266--31119688 Score: 1925
Period size: 89 Copynumber: 16.0 Consensus size: 89
31118256 TCTGCTGCGC
* * * *
31118266 TTGATCTACTTCACGCC---A-ATGAAGACAAGGTCTG-TTCTCTTCGATCTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCACCAG
* *
31118326 CATGGGGAGACAAGATCTG-TAGTCT
65 TATGGGAAGACAAGATCTGTTA-TCT
* * *
31118351 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTTTCTTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG--CTTTC-TTCGATCTGCTTCGCCACC
* *
31118416 AGTATGGGAAGACAAGATCTATTACCT
63 AGTATGGGAAGACAAGATCTGTTATCT
* * * * *
31118443 TTGATCTACTTCACGCCAGTACATGAAGACAATATATG-TTCTCTTCGATCTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCACCAG
* * * *
31118507 TGTGGGGAGACAAGATTTGTTGTCT
65 TATGGGAAGACAAGATCTGTTATCT
* * *
31118532 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTGCTTTGATCTGCTTCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
31118597 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
31118621 CTT-ATCTACTTCATGCTAGTACATGAAGACAGGATCTGCTTTCTTTGATCTGCTTCGCCACCAG
1 -TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAG
31118685 TATGGGAAGACAAGATCTG-TATCT
65 TATGGGAAGACAAGATCTGTTATCT
* * * *
31118709 CTGATCTACTTCACGCCAGTGCATGAAGATAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACC
31118774 AGTATGGGAAGACAAGATCTGTTATCT
63 AGTATGGGAAGACAAGATCTGTTATCT
* * *
31118801 TTGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTTCGATCCGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
31118866 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
31118890 TTGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTTCGATCCGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
* *
31118955 ATGGGAAGACAAGATCTATTACCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * *
31118979 TTGATCTACTTCACGCCAGTACATGAAGACAATATATG-TTCTCTTCGATCTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCACCAG
* * * *
31119043 TGTGGGGAGACAAGATTTGTTGTCT
65 TATGGGAAGACAAGATCTGTTATCT
*
31119068 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
* *
31119133 ATGGGAAGGCAAGACCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* **
31119157 TTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTATTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
31119222 ATGGGAAGACAAGATCTGTTA-CAT
66 ATGGGAAGACAAGATCTGTTATC-T
*
31119246 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
31119311 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * * *
31119335 CTGATCTATTTCATGCCAGTACATGAAGAAAAGATCTGCTTTCTTTGATCTGCTTCGCCACTAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
** *
31119400 ATGGGAAGGTAAGACCTG-TATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * *
31119423 CTGATCTACTTCAAGCCAGTACATGAAGATAATATCTGCTTTTTCCTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACC
* *
31119488 AGTATGGGAAGACAAGATTTGTTTTCT
63 AGTATGGGAAGACAAGATCTGTTATCT
*
31119515 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
31119580 ATGGGAAGATAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
31119604 TTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTTTCTTCGATCTGTTTTGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
31119669 ATGGGAAGACAAGATCTGTT
66 ATGGGAAGACAAGATCTGTT
31119689 GCTACTCTAT
Statistics
Matches: 1195, Mismatches: 118, Indels: 46
0.88 0.09 0.03
Matches are distributed among these distances:
85 17 0.01
87 1 0.00
88 80 0.07
89 846 0.71
90 21 0.02
91 75 0.06
92 153 0.13
93 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:31119666 original size:714 final size:712
Alignment explanation
Indices: 31118266--31119685 Score: 2326
Period size: 714 Copynumber: 2.0 Consensus size: 712
31118256 TCTGCTGCGC
* *
31118266 TTGATCTACTTCACGCCAATGAAGACAAGGTCTGTTCTCTTCGATCTACTCCACCACCAGCATGG
1 TTGATCTACTTCACGCCAATGAAGACAAGATATGTTCTCTTCGATCTACTCCACCACCAGCATGG
*
31118331 GGAGACAAGATCTGTAGTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTTTC
66 GGAGACAAGATCTGTAGTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TCTTTC
* *
31118396 TTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTACCTTTGATCTACTTCACGCCA
130 TTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGACCTATTACCTTTGATCTACTTCACACCA
* * * *
31118461 GTACATGAAGACAATATATGTTCTCTTCGATCTACTCCACCACCAGTGTGGGGAGACAAGATTTG
195 GTACATGAAGACAAGATATGTTCTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTG
*
31118526 TTGTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTGCTTTGATCTGCTTCACC
260 TTGACTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTGCTTTGATCTGCTTCACC
* * * *
31118591 ACCAGTATGGGAAGGCAAGATCTGTTATCTCTTATCTACTTCATGCTAGTACATGAAGACAGGAT
325 ACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCATGCCAGTACATGAAGAAAAGAT
*
31118656 CTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTATCTCTGATCTACTTC
390 CTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGACAAGACCTGTATCTCTGATCTACTTC
* *
31118721 ACGCCAGTGCATGAAGATAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGA
455 AAGCCAGTACATGAAGATAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGA
*
31118786 CAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTTCGATC
520 CAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATC
31118851 CGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
585 CGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGA
* *
31118916 AGACAATATCTGCTTTCTTCGATCCGTTTCGCCACCAGTATGGGAAGACAAGATCTATTACCT
650 AGACAAGATATGCTTTCTTCGATCCGTTTCGCCACCAGTATGGGAAGACAAGATCTATTACCT
* *
31118979 TTGATCTACTTCACGCCAGTACATGAAGACAATATATGTTCTCTTCGATCTACTCCACCACCAGT
1 TTGATCTACTTCACGCC---A-ATGAAGACAAGATATGTTCTCTTCGATCTACTCCACCACCAGC
* * * *
31119044 GTGGGGAGACAAGATTTGTTGTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-CT
62 ATGGGGAGACAAGATCTGTAGTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTCT
* * * *
31119108 TTCTTT-GATCTGCTTCGCCACCAGTATGGGAAGGCAAGACCTGTTATCTTTGATCTACTTCACA
127 TTCTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGACCTATTACCTTTGATCTACTTCACA
* * * *
31119172 CCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTATTTCGCCACCAGTATGGGAAGACAAGA
192 CCAGTACATGAAGACAAGATATG-TTCTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGA
*
31119236 TCTGTT-ACATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCT
256 TCTGTTGAC-TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTGCTTTGATCTGCT
* *
31119300 TCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTATTTCATGCCAGTACATGAAGAA
320 TCACCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCATGCCAGTACATGAAGAA
* **
31119365 AAGATCTGCTTTCTTTGATCTGCTTCGCCACTAGTATGGGAAGGTAAGACCTGTATCTCTGATCT
385 AAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGACAAGACCTGTATCTCTGATCT
*
31119430 ACTTCAAGCCAGTACATGAAGATAATATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGG
450 ACTTCAAGCCAGTACATGAAGATAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGG
* *
31119495 GAAGACAAGATTTGTTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
515 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
31119560 CGATCTGTTTCGCCACCAGTATGGGAAGATAAGATCTGTTATCTTTGATCTACTTCACGCCAGTA
580 CGATCCGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTA
* *
31119625 CATGAAGACAAGATATGCTTTCTTCGATCTGTTTTGCCACCAGTATGGGAAGACAAGATCT
645 CATGAAGACAAGATATGCTTTCTTCGATCCGTTTCGCCACCAGTATGGGAAGACAAGATCT
31119686 GTTGCTACTC
Statistics
Matches: 654, Mismatches: 47, Indels: 11
0.92 0.07 0.02
Matches are distributed among these distances:
713 18 0.03
714 529 0.81
715 9 0.01
716 1 0.00
717 97 0.15
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (712 bp):
TTGATCTACTTCACGCCAATGAAGACAAGATATGTTCTCTTCGATCTACTCCACCACCAGCATGG
GGAGACAAGATCTGTAGTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTCTTTCT
TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGACCTATTACCTTTGATCTACTTCACACCAG
TACATGAAGACAAGATATGTTCTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGT
TGACTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTGCTTTGATCTGCTTCACCA
CCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCATGCCAGTACATGAAGAAAAGATC
TGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGACAAGACCTGTATCTCTGATCTACTTCA
AGCCAGTACATGAAGATAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCC
GTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAA
GACAAGATATGCTTTCTTCGATCCGTTTCGCCACCAGTATGGGAAGACAAGATCTATTACCT
Found at i:31120954 original size:7 final size:7
Alignment explanation
Indices: 31120932--31120978 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
31120922 CCTTAGCCTC
31120932 TTCATTT
1 TTCATTT
*
31120939 TTACTTTT
1 TT-CATTT
31120947 TTCATTT
1 TTCATTT
31120954 TTCA-TT
1 TTCATTT
31120960 TTCATCTT
1 TTCAT-TT
31120968 TTCATTT
1 TTCATTT
31120975 TTCA
1 TTCA
31120979 CATCACTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.17
7 16 0.46
8 13 0.37
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
TTCATTT
Found at i:31120990 original size:21 final size:22
Alignment explanation
Indices: 31120941--31120990 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
31120931 CTTCATTTTT
**
31120941 ACTTTTTTCATTTTTCATTTTC
1 ACTTTTTTCATTTTTCATCATC
*
31120963 A-TCTTTTCATTTTTCA-CATC
1 ACTTTTTTCATTTTTCATCATC
31120983 ACTTTTTT
1 ACTTTTTT
31120991 TTGGACTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.13
21 19 0.83
22 1 0.04
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (22 bp):
ACTTTTTTCATTTTTCATCATC
Found at i:31121945 original size:19 final size:19
Alignment explanation
Indices: 31121921--31121959 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
31121911 GGTTTGGCAG
31121921 AAAAATCCAAAAGAATGAA
1 AAAAATCCAAAAGAATGAA
**
31121940 AAAAATCGTAAAGAATGAA
1 AAAAATCCAAAAGAATGAA
31121959 A
1 A
31121960 GAACATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAAATCCAAAAGAATGAA
Found at i:31125672 original size:21 final size:23
Alignment explanation
Indices: 31125639--31125681 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
31125629 ATATATATTT
*
31125639 TATATAAAGAAATATGTATATAC
1 TATATAAAGAAATACGTATATAC
*
31125662 TATAT-AA-AAATGCGTATATA
1 TATATAAAGAAATACGTATATA
31125682 AGTTTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (23 bp):
TATATAAAGAAATACGTATATAC
Found at i:31128546 original size:17 final size:16
Alignment explanation
Indices: 31128516--31128560 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
31128506 ATTTTTTTAA
*
31128516 TTTAAAAGAGTTTTTGTT
1 TTTAAAA-A-TTTTTATT
31128534 TTTCAAAAATTTTTATT
1 TTT-AAAAATTTTTATT
31128551 TTTAAAAATT
1 TTTAAAAATT
31128561 ATAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
18 4 0.16
19 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (16 bp):
TTTAAAAATTTTTATT
Found at i:31133860 original size:6 final size:6
Alignment explanation
Indices: 31133849--31133877 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
31133839 ACATAAGAAA
31133849 TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATAT
31133878 TTTTGGCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:31135041 original size:14 final size:15
Alignment explanation
Indices: 31135013--31135047 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
31135003 TATTATTTTT
31135013 TATTTTTATTAAAAA
1 TATTTTTATTAAAAA
31135028 TATTTTTATTAAAAA
1 TATTTTTATTAAAAA
31135043 TATTT
1 TATTT
31135048 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTTTATTAAAAA
Found at i:31135205 original size:20 final size:20
Alignment explanation
Indices: 31135180--31135229 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
31135170 GCTGCTGCCT
*
31135180 TTGTCCCTTCCACCATGG-TG
1 TTGTCCCTTCCACCA-GGCTA
*
31135200 TTGTCCATTCCACCAGGCTA
1 TTGTCCCTTCCACCAGGCTA
31135220 TTGTCCCTTC
1 TTGTCCCTTC
31135230 AATGGGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.12, C:0.36, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGTCCCTTCCACCAGGCTA
Found at i:31135311 original size:11 final size:10
Alignment explanation
Indices: 31135295--31135350 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
31135285 GTATCAACTG
31135295 GAAAAGAGAAA
1 GAAAAGAG-AA
31135306 GAAAAGAG-A
1 GAAAAGAGAA
*
31135315 GAAAGGAGAA
1 GAAAAGAGAA
*
31135325 GAAGAGAAGAA
1 GAAAAG-AGAA
31135336 GAAGAAGA-AA
1 GAA-AAGAGAA
31135346 GAAAA
1 GAAAA
31135351 AAAAAAGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 10 0.26
10 10 0.26
11 16 0.42
12 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:31135331 original size:17 final size:17
Alignment explanation
Indices: 31135304--31135348 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
31135294 GGAAAAGAGA
31135304 AAGAA-AAGAG-AGAAAG
1 AAGAAGAAGAGAAG-AAG
*
31135320 GAGAAGAAGAGAAGAAG
1 AAGAAGAAGAGAAGAAG
31135337 AAGAAGAA-AGAA
1 AAGAAGAAGAGAA
31135349 AAAAAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 15 0.60
18 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAGAAGAAG
Found at i:31135628 original size:21 final size:21
Alignment explanation
Indices: 31135602--31135645 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
31135592 TAATTTAAAT
31135602 TTGTAAGACTTCAATATTATA
1 TTGTAAGACTTCAATATTATA
31135623 TTGTAAGACTTCAATATTATA
1 TTGTAAGACTTCAATATTATA
31135644 TT
1 TT
31135646 CGAAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (21 bp):
TTGTAAGACTTCAATATTATA
Found at i:31136124 original size:38 final size:39
Alignment explanation
Indices: 31136082--31136159 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
31136072 TTTTAATCAT
31136082 ATAGTTGCTGTTAACTCATTTAA-TTTTTTTATATCAAC
1 ATAGTTGCTGTTAACTCATTTAAGTTTTTTTATATCAAC
*
31136120 ATAGTTGTTGTTAACTCATTTAATGTTTTTTTATATCAAC
1 ATAGTTGCTGTTAACTCATTTAA-GTTTTTTTATATCAAC
31136160 TTGGGGTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 22 0.59
40 15 0.41
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (39 bp):
ATAGTTGCTGTTAACTCATTTAAGTTTTTTTATATCAAC
Found at i:31136396 original size:58 final size:58
Alignment explanation
Indices: 31136238--31136419 Score: 212
Period size: 58 Copynumber: 3.2 Consensus size: 58
31136228 TACCGAAATG
* *
31136238 ATATGTTTTTTGTAATCGTGCCTATCTGACAGGCGCCAATCAATTTTTTATATTAACAAA
1 ATATATTTTTT-TAATCGTGCCTATCTGACAGGCGCAAATCAATTTTTTATATTAA-AAA
** * * * *
31136298 A-A-A--AATTTAATCGCGCCTATTTGACAGACGCGAATCAATTTTTTATATTAAAAA
1 ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCAAATCAATTTTTTATATTAAAAA
* * *
31136352 ATATATTTTTTTAATCGTGTCTATCCGACAGGCGCAAATTAATTTTTTATATTAAAAA
1 ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCAAATCAATTTTTTATATTAAAAA
31136410 ATAT-TTTTTT
1 ATATATTTTTT
31136420 GTTTAAATAA
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
54 4 0.04
55 41 0.40
56 3 0.03
57 6 0.06
58 46 0.45
59 1 0.01
60 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (58 bp):
ATATATTTTTTTAATCGTGCCTATCTGACAGGCGCAAATCAATTTTTTATATTAAAAA
Found at i:31136694 original size:16 final size:16
Alignment explanation
Indices: 31136673--31136711 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
31136663 TTAACTCATT
*
31136673 TAATTTTTATATAATG
1 TAATTTTTATATAATA
31136689 TAATTTTTATATAATA
1 TAATTTTTATATAATA
31136705 TAATTTT
1 TAATTTT
31136712 ATTTGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:31139851 original size:20 final size:20
Alignment explanation
Indices: 31139826--31139863 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31139816 ACTAGATCTG
31139826 TTAAAAAAATTTCAAAATTC
1 TTAAAAAAATTTCAAAATTC
* *
31139846 TTAAAACAATTTCGAAAT
1 TTAAAAAAATTTCAAAAT
31139864 GCAAAAAAAT
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TTAAAAAAATTTCAAAATTC
Found at i:31140354 original size:56 final size:56
Alignment explanation
Indices: 31140274--31140390 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 56
31140264 ATATTTTATT
* * * * *
31140274 AAAAGAAAAAAGTTAATATAAAAAATTTATTGACGCCTGTCAAATAGGCTCGATTA
1 AAAAGAAAAAAATTAATATAAAAAATTCATTGACACCTGTCAAATAGGCGCCATTA
* *
31140330 AAAAGAAAAAAAATTAATATAAAAAATTCATTGGCACCTGTCAGATAGGCGCCATTA
1 AAAAG-AAAAAAATTAATATAAAAAATTCATTGACACCTGTCAAATAGGCGCCATTA
31140387 AAAA
1 AAAA
31140391 AAACATACTA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
56 5 0.09
57 48 0.91
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (56 bp):
AAAAGAAAAAAATTAATATAAAAAATTCATTGACACCTGTCAAATAGGCGCCATTA
Found at i:31145349 original size:26 final size:26
Alignment explanation
Indices: 31145313--31145390 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
31145303 ACTCAGTTCC
31145313 CGAGGCAAAGCCAAAGATCCAGCTCG
1 CGAGGCAAAGCCAAAGATCCAGCTCG
*
31145339 CGAGGCAAAGCCAATGA-CCTAGCTCG
1 CGAGGCAAAGCCAAAGATCC-AGCTCG
* * ** *
31145365 CAAGGCAAGGCCGCAGATCTAGCTCG
1 CGAGGCAAAGCCAAAGATCCAGCTCG
31145391 TAGAAAGGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.05
26 40 0.93
27 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.28, T:0.10
Consensus pattern (26 bp):
CGAGGCAAAGCCAAAGATCCAGCTCG
Found at i:31148369 original size:109 final size:108
Alignment explanation
Indices: 31148161--31148370 Score: 316
Period size: 109 Copynumber: 1.9 Consensus size: 108
31148151 GGTAAACGAC
* *
31148161 AAATGGAAAATGTGTATCAACTTAAATGACAAATAACAGTTTTCCCTACCCTCGATTGATCGATT
1 AAATGGAAAATGTGTATCAACTTAAACGACAAATAACAGTTTTCCCTACCCTCGATTGATCAATT
31148226 AATAGATGCCTCTTCAGGTCACAAGTTCACGAGCTTAAACGGT
66 AATAGATGCCTCTTCAGGTCACAAGTTCACGAGCTTAAACGGT
* * *
31148269 AAAT-GAAGAATGTGTATCGACTTAAACGACAAATGACAGTTTTCCCCTACCCTTGATTGA-CTA
1 AAATGGAA-AATGTGTATCAACTTAAACGACAAATAACAGTTTT-CCCTACCCTCGATTGATC-A
* *
31148332 ATTAGTGGATGCCTCTTCAGGTCACAAGTTCACGAGCTT
63 ATTAATAGATGCCTCTTCAGGTCACAAGTTCACGAGCTT
31148371 CATGGATGCT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
107 3 0.03
108 37 0.40
109 52 0.57
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (108 bp):
AAATGGAAAATGTGTATCAACTTAAACGACAAATAACAGTTTTCCCTACCCTCGATTGATCAATT
AATAGATGCCTCTTCAGGTCACAAGTTCACGAGCTTAAACGGT
Found at i:31164410 original size:20 final size:20
Alignment explanation
Indices: 31164365--31164404 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31164355 TCGGGGGAAA
* *
31164365 TATTATCTTTTATTTTATTT
1 TATTTTCTTTGATTTTATTT
31164385 TATTTTCTTTGATTTTATTT
1 TATTTTCTTTGATTTTATTT
31164405 ACTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (20 bp):
TATTTTCTTTGATTTTATTT
Found at i:31165738 original size:328 final size:324
Alignment explanation
Indices: 31165145--31165800 Score: 1008
Period size: 328 Copynumber: 2.0 Consensus size: 324
31165135 ATTTAATTTC
* *
31165145 TCATTACCATGAGTTCTCCAATTCGTCTAAGTGTATAAATAAAGAGATTTATTTAACTCTAGTCA
1 TCATTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAACTCTAATCA
* *
31165210 AGGATTACTGTATTGATGAAGGACGTGATCACATGCACGAATATATAAATACATTTATGATAATG
66 AGGATCACTGTATTGATGAAGGACGTAATCACATGCACGAATATATAAATACATTTATGATAATG
* * * *
31165275 ATATTGTTGATGGCGGGCAAGGTTTTGTGATGTTGGTCGATGATGAAGCCATGCAAAGAAATTGG
131 ATATTGTTGATGACGAGCAAGGTTTTGTGATGTTGGTCGACGATGAAGCCACGCAAAGAAATTGG
* * * *
31165340 AAATAATTATACAGACTAGAAAACTGGAAGTAATTAAAAGTTTGTGGGGGGTTTTGTGCTATTCA
196 AAATAACTATACAGACCAAAAAACTGGAAGTAATTAAAAGTTTATGGGGGGTTTTGTGCTATTCA
* **
31165405 TAGATACATGCATCGCATTTTCATGGTTGCT-TATATAGTTAATTGTATTTAGTGCTTTCCCTTT
261 TAGATACATGAATCGCATTTTCATGGTT-CTCTATATAAATAATTGTATTTAGTGCTTTCCCTTT
* * *
31165469 TCATTACCATGAGTTCTCCAATTCATTTAAGTGTATAAATAAAGAGATTTGTTTAATTCTAATCA
1 TCATTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAACTCTAATCA
* ** *
31165534 ATGATCACTGTATTGATGAAGGACGTAATCACATGCATTAATATATAAATAAATATATATATGAT
66 AGGATCACTGTATTGATGAAGGACGTAATCACATGCACGAATATATAAAT--ACAT-T-TATGAT
* * *
31165599 AATGATATTGTTGATGACGAGCAAGGTTTTTTGATGTTGGTTGACGATGAAGCCACGTAAAGAAA
127 AATGATATTGTTGATGACGAGCAAGGTTTTGTGATGTTGGTCGACGATGAAGCCACGCAAAGAAA
*
31165664 TTGGAAATAACTATGCAGACCAAAAAACTGGAAGTAATTAAAAGTTTATGGGGGGTTTTGTGCTA
192 TTGGAAATAACTATACAGACCAAAAAACTGGAAGTAATTAAAAGTTTATGGGGGGTTTTGTGCTA
* *
31165729 TTCATAGATACATGAATTGCATTTTCATGGTTCTCTATATAAATAATTGTATTTAGTGCTTTCCT
257 TTCATAGATACATGAATCGCATTTTCATGGTTCTCTATATAAATAATTGTATTTAGTGCTTTCCC
31165794 TTT
322 TTT
31165797 TCAT
1 TCAT
31165801 ATTTATCAAG
Statistics
Matches: 299, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
324 105 0.35
326 3 0.01
327 3 0.01
328 188 0.63
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (324 bp):
TCATTACCATGAGTTCTCCAATTCATCTAAGTGTATAAATAAAGAGATTTATTTAACTCTAATCA
AGGATCACTGTATTGATGAAGGACGTAATCACATGCACGAATATATAAATACATTTATGATAATG
ATATTGTTGATGACGAGCAAGGTTTTGTGATGTTGGTCGACGATGAAGCCACGCAAAGAAATTGG
AAATAACTATACAGACCAAAAAACTGGAAGTAATTAAAAGTTTATGGGGGGTTTTGTGCTATTCA
TAGATACATGAATCGCATTTTCATGGTTCTCTATATAAATAATTGTATTTAGTGCTTTCCCTTT
Found at i:31167260 original size:13 final size:14
Alignment explanation
Indices: 31167242--31167270 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
31167232 TAAGCATTTC
31167242 TGTTTAGTTA-AAA
1 TGTTTAGTTAGAAA
31167255 TGTTTAGTTAGAAA
1 TGTTTAGTTAGAAA
31167269 TG
1 TG
31167271 AAACTGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TGTTTAGTTAGAAA
Found at i:31175954 original size:105 final size:105
Alignment explanation
Indices: 31175773--31175966 Score: 237
Period size: 105 Copynumber: 1.8 Consensus size: 105
31175763 AATGTTTAAA
** * * * **
31175773 TGTAAGACCATAGCTGGGCTATGGCATTTTAATGAAAAGATCGTAACTGGGTTATGGCACCTTGA
1 TGTAAGACCATAGCTGGAATATGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTACA
**
31175838 ACGTAAAACCATGGTTGGACCATGACAGTATAGATACATG
66 ACGTAAAACCATGGCAGGACCATGACAGTATAGATACATG
* * * *
31175878 TGTAAGACTATAGTTGGAATATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCA-CTACA
1 TGTAAGACCATAGCTGGAATATGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTACA
* *
31175942 GATGTAAGACCATGGCAGGACCATG
66 -ACGTAAAACCATGGCAGGACCATG
31175967 GCAATGCATC
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
104 3 0.04
105 70 0.96
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGAATATGGCATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTACA
ACGTAAAACCATGGCAGGACCATGACAGTATAGATACATG
Found at i:31178682 original size:40 final size:40
Alignment explanation
Indices: 31178562--31178700 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 40
31178552 ACTTCGAGTT
* * * *
31178562 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATCC
* * * * * * * *
31178603 GACGAGCCATTGTGTG-C-CAGT-TTACTTCGATTTAACC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
31178640 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
* *
31178680 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
31178701 CTGGTGTGTT
Statistics
Matches: 73, Mismatches: 22, Indels: 7
0.72 0.22 0.07
Matches are distributed among these distances:
37 14 0.19
38 10 0.14
39 3 0.04
40 34 0.47
41 12 0.16
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
Found at i:31180657 original size:33 final size:32
Alignment explanation
Indices: 31180620--31180735 Score: 112
Period size: 33 Copynumber: 3.6 Consensus size: 32
31180610 AGATCAATTT
31180620 ATATTTTATGTATTATTATGTTAAATTATTTAA
1 ATATTTTATGTATTATTAT-TTAAATTATTTAA
* **
31180653 ATATTTCATGTAACATTATATTAAATTATTTAA
1 ATATTTTATGTATTATTAT-TTAAATTATTTAA
* * *
31180686 ATATGATT-TGTTATTA-TATTTAAGGTT-TTAAA
1 ATAT-TTTATG-TATTATTATTTAA-ATTATTTAA
31180718 ATATTTTATGTATTATTA
1 ATATTTTATGTATTATTA
31180736 ATTTTATAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
31 7 0.10
32 16 0.24
33 40 0.60
34 4 0.06
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (32 bp):
ATATTTTATGTATTATTATTTAAATTATTTAA
Found at i:31186391 original size:5 final size:5
Alignment explanation
Indices: 31186381--31186407 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
31186371 GGTAGTTGAT
31186381 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
31186408 TTTGATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:31186439 original size:15 final size:15
Alignment explanation
Indices: 31186419--31186448 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31186409 TTGATCAAAA
31186419 TATATAATTTATTAG
1 TATATAATTTATTAG
31186434 TATATAATTTATTAG
1 TATATAATTTATTAG
31186449 GAAACTAAAA
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:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TATATAATTTATTAG
Found at i:31188309 original size:20 final size:21
Alignment explanation
Indices: 31188277--31188315 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
31188267 TCAATTTTTT
31188277 AAAAAAACTTATA-TAAAATC
1 AAAAAAACTTATATTAAAATC
31188297 AAAAAAA-TATATATTAAAA
1 AAAAAAACT-TATATTAAAA
31188316 ATTATGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAAACTTATATTAAAATC
Found at i:31189017 original size:28 final size:27
Alignment explanation
Indices: 31188985--31189068 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 27
31188975 TCCTTTTTTC
31188985 AAATATATATAAACATTAACAAAATAAA
1 AAATATATATAAA-ATTAACAAAATAAA
* * * * *
31189013 AAATAGAAAAAAAAATAAAAAAAATAAA
1 AAATA-TATATAAAATTAACAAAATAAA
31189041 AAA-ATCATAT-AAATTATAC-AAATAAA
1 AAATAT-ATATAAAATTA-ACAAAATAAA
31189067 AA
1 AA
31189069 TTACAAAATA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
26 14 0.33
27 4 0.09
28 20 0.47
29 5 0.12
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.20
Consensus pattern (27 bp):
AAATATATATAAAATTAACAAAATAAA
Found at i:31189029 original size:19 final size:19
Alignment explanation
Indices: 31189005--31189044 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
31188995 AAACATTAAC
*
31189005 AAAATAAAAAATAGAAAAA
1 AAAATAAAAAAAAGAAAAA
*
31189024 AAAATAAAAAAAATAAAAA
1 AAAATAAAAAAAAGAAAAA
31189043 AA
1 AA
31189045 TCATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.10
Consensus pattern (19 bp):
AAAATAAAAAAAAGAAAAA
Found at i:31189045 original size:8 final size:9
Alignment explanation
Indices: 31189005--31189044 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
31188995 AAACATTAAC
31189005 AAAATAAAA
1 AAAATAAAA
31189014 AATAGA-AAAA
1 AA-A-ATAAAA
31189024 AAAATAAAA
1 AAAATAAAA
31189033 AAAATAAAA
1 AAAATAAAA
31189042 AAA
1 AAA
31189045 TCATATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.04
9 19 0.68
10 7 0.25
11 1 0.04
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.10
Consensus pattern (9 bp):
AAAATAAAA
Found at i:31189775 original size:122 final size:123
Alignment explanation
Indices: 31189566--31189787 Score: 383
Period size: 122 Copynumber: 1.8 Consensus size: 123
31189556 AATTTAGAGT
* *
31189566 AATTAAAATTAAAATCGGTTGCCTCTTTGTGTGATGAGAGTGTAGCAACAATAGAGTATTCTTTA
1 AATTAAAATTAAAATCGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATTCTTTA
31189631 GTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAGTATAGTAATTAA
66 GTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAGTATAGTAATTAA
** *
31189689 AATTAAAATTTTAAT-GGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATATAGTATTCTTTA
1 AATTAAAATTAAAATCGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATTCTTTA
*
31189753 GTGATTTAGTGTCACAACAATATGAACACAAAATT
66 GTGATTTAGTGTCACAACAATATGAAAACAAAATT
31189788 GCTTTGCAAG
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
122 80 0.86
123 13 0.14
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (123 bp):
AATTAAAATTAAAATCGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAGAGTATTCTTTA
GTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAGTATAGTAATTAA
Found at i:31197784 original size:50 final size:50
Alignment explanation
Indices: 31197712--31197817 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
31197702 TATTGAGGTT
* * * *
31197712 ATGAGATGTCCCTCGTAAGACCATATTTAGGACATGACATTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACCATATATAGGACATGACATGGGCACCGAG
* * * * *
31197762 ATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCATCGAT
1 ATGAGAGGTCCCCCGTAAGACCATATATAGGACATGACATGGGCACCGAG
31197812 ATGAGA
1 ATGAGA
31197818 ACTCCCATGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACCATATATAGGACATGACATGGGCACCGAG
Found at i:31197843 original size:50 final size:50
Alignment explanation
Indices: 31197720--31197843 Score: 122
Period size: 50 Copynumber: 2.5 Consensus size: 50
31197710 TTATGAGATG
* * * * **
31197720 TCCCTCGTAAGACCATATTTAGGACATGACATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATATATGGGACATGACATGGGCACCGAGATGAGAAC
* * * * *
31197770 TCCCCCGTAAGACCATGTATGGGACATGGCATGGGCATCGATATGAGAAC
1 TCCCACGTAAGACCATATATGGGACATGACATGGGCACCGAGATGAGAAC
* * *
31197820 TCCCATGTAACACCATATCTGGGA
1 TCCCACGTAAGACCATATATGGGA
31197844 TATGTCATTG
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATATATGGGACATGACATGGGCACCGAGATGAGAAC
Found at i:31207441 original size:50 final size:50
Alignment explanation
Indices: 31207321--31207613 Score: 322
Period size: 50 Copynumber: 5.9 Consensus size: 50
31207311 AATATAACAG
* * * ** * * * *
31207321 GCCAAAGCTATGTCCTAGACATAGTCTTACATGGGATGTTTCTTGTA-CT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
* * ** *
31207370 GCCAATGCCAT-ACCTCAGACATGGTCTTACATGGGAGTTCTCATATAGGT
1 GCCAACGCCATGTCCT-AGACATGGTCTTACATGGGACCTCTCATCTAGGT
* ** *
31207420 GACC-ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTTGGT
1 G-CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
* *
31207470 GCCAACGCCATGTCCTAGACATTGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
* * * *
31207520 GCCAACGCCATGTCCCAGACATGATCTTACATGAGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
*
31207570 ACCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
31207614 AATCTCAATG
Statistics
Matches: 209, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
48 3 0.01
49 36 0.17
50 165 0.79
51 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
Found at i:31211332 original size:19 final size:19
Alignment explanation
Indices: 31211309--31211352 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
31211299 TCTAATTTGA
*
31211309 AAAAAAATAGAAAATTTTAG
1 AAAAATATA-AAAATTTTAG
* *
31211329 AAAAATCTAAAAATTTTGG
1 AAAAATATAAAAATTTTAG
31211348 AAAAA
1 AAAAA
31211353 GGATCACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (19 bp):
AAAAATATAAAAATTTTAG
Found at i:31212674 original size:32 final size:32
Alignment explanation
Indices: 31212606--31212715 Score: 114
Period size: 32 Copynumber: 3.5 Consensus size: 32
31212596 GAATGGCAAC
* * * *
31212606 AAGCCATAAGTA-CAGTAATATGTTTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGACACA
* * *
31212637 AAGCCATCAGTAGTAGTGATATGATCGACATA
1 AAGCCATCAGTAGCAGTAATATGATCGACACA
* * * *
31212669 CAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGACACA
31212701 AAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
31212716 TCGCAGCAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
31 11 0.18
32 50 0.82
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGACACA
Found at i:31212779 original size:26 final size:26
Alignment explanation
Indices: 31212715--31212785 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
31212705 CATCAGTAGC
* *
31212715 ATCGCAGCAAAGCTACCAGCAACAGT
1 ATCGCAGCAAAGTTGCCAGCAACAGT
*
31212741 ATCGCAGCAAAGTTGCTAGCAACAGT
1 ATCGCAGCAAAGTTGCCAGCAACAGT
31212767 ATCGCAGCAAAGTTGCCAG
1 ATCGCAGCAAAGTTGCCAG
31212786 TATAGTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (26 bp):
ATCGCAGCAAAGTTGCCAGCAACAGT
Found at i:31212941 original size:24 final size:23
Alignment explanation
Indices: 31212914--31212989 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 23
31212904 TCAGAATTAA
*
31212914 TCATTCAAATCACAGACAACTCAG
1 TCATTCAAA-CACAGACAAATCAG
*
31212938 TCATACCAAACACAGACAAATCAG
1 TCAT-TCAAACACAGACAAATCAG
* * * *
31212962 TCATTTAACCACAGACAATTCAA
1 TCATTCAAACACAGACAAATCAG
31212985 TCATT
1 TCATT
31212990 TGACGTCGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 19 0.43
24 21 0.48
25 4 0.09
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.22
Consensus pattern (23 bp):
TCATTCAAACACAGACAAATCAG
Found at i:31213258 original size:27 final size:27
Alignment explanation
Indices: 31213001--31213250 Score: 313
Period size: 27 Copynumber: 9.3 Consensus size: 27
31212991 GACGTCGAGC
* *
31213001 GTATTACGATCATTTTACTCTACAGGG
1 GTATTACGGTCATTTTACCCTACAGGG
* * * *
31213028 GCATTATGGTCATTTTACCCTATAGGT
1 GTATTACGGTCATTTTACCCTACAGGG
*
31213055 GTATTACGGCCATTTTACCCTACA-GG
1 GTATTACGGTCATTTTACCCTACAGGG
* *
31213081 GCATTACGGTTATTTTACCCTACAGGG
1 GTATTACGGTCATTTTACCCTACAGGG
*
31213108 GTATTATGGTCATTTTACCCTACAGGGG
1 GTATTACGGTCATTTTACCCTACA-GGG
* *
31213136 GTATTAAGGTCATTTTACCCTACAAGG
1 GTATTACGGTCATTTTACCCTACAGGG
* *
31213163 GCATTACGGTCATTTTACCCTACAAGG
1 GTATTACGGTCATTTTACCCTACAGGG
* * *
31213190 GCATTACGGTCATTTTACCTTATAGGG
1 GTATTACGGTCATTTTACCCTACAGGG
*
31213217 GTATTACGGTTATTTTACCCTACAGGG
1 GTATTACGGTCATTTTACCCTACAGGG
*
31213244 GTGTTAC
1 GTATTAC
31213251 AATCATTTAA
Statistics
Matches: 192, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 22 0.11
27 144 0.75
28 26 0.14
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GTATTACGGTCATTTTACCCTACAGGG
Found at i:31220541 original size:23 final size:23
Alignment explanation
Indices: 31220515--31220560 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
31220505 ATAGCATACT
31220515 CTTTACCGGATTCAGGCTGACTC
1 CTTTACCGGATTCAGGCTGACTC
*
31220538 CTTTCCCGGATTCAGGCTGACTC
1 CTTTACCGGATTCAGGCTGACTC
31220561 ATTACAGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.30
Consensus pattern (23 bp):
CTTTACCGGATTCAGGCTGACTC
Found at i:31228303 original size:19 final size:20
Alignment explanation
Indices: 31228256--31228305 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
31228246 CCACAAATCG
31228256 TAGTGGCATTTTAATGTTTTC
1 TAGT-GCATTTTAATGTTTTC
31228277 TAGT-CATTTTAATGTTTT-
1 TAGTGCATTTTAATGTTTTC
*
31228295 TATTGCATTTT
1 TAGTGCATTTT
31228306 CGCATTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
21 4 0.15
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.58
Consensus pattern (20 bp):
TAGTGCATTTTAATGTTTTC
Found at i:31231144 original size:14 final size:15
Alignment explanation
Indices: 31231125--31231174 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
31231115 CCAAGCATGC
31231125 TTTAGT-ACTTTATT
1 TTTAGTCACTTTATT
31231139 TTTAGTCACATTT-TT
1 TTTAGTCAC-TTTATT
*
31231154 TCTT-GTCATTTTATT
1 T-TTAGTCACTTTATT
31231169 TTTAGT
1 TTTAGT
31231175 TTGATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
14 11 0.37
15 14 0.47
16 5 0.17
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (15 bp):
TTTAGTCACTTTATT
Found at i:31235192 original size:7 final size:7
Alignment explanation
Indices: 31235180--31235205 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31235170 AAATTTAAAC
31235180 ATTTTTT
1 ATTTTTT
31235187 ATTTTTT
1 ATTTTTT
31235194 ATTTTTT
1 ATTTTTT
31235201 ATTTT
1 ATTTT
31235206 GGGACTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:31239316 original size:13 final size:13
Alignment explanation
Indices: 31239298--31239322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31239288 CACTATAATA
31239298 TTATTTTTGTGTG
1 TTATTTTTGTGTG
31239311 TTATTTTTGTGT
1 TTATTTTTGTGT
31239323 TTCAGAATAG
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:0.08, C:0.00, G:0.20, T:0.72
Consensus pattern (13 bp):
TTATTTTTGTGTG
Found at i:31239572 original size:52 final size:52
Alignment explanation
Indices: 31239494--31239597 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
31239484 AATATGGAGG
*
31239494 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATGTGTCTTTC
1 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATCTGTCTTTC
31239546 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATCTGTCTTTC
1 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATCTGTCTTTC
31239598 TTTTTTTATG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.21, C:0.09, G:0.14, T:0.56
Consensus pattern (52 bp):
GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATCTGTCTTTC
Found at i:31245532 original size:80 final size:79
Alignment explanation
Indices: 31245360--31245585 Score: 263
Period size: 80 Copynumber: 2.8 Consensus size: 79
31245350 GTTAACAATA
* * * * * **
31245360 AAAATCGAATAAATTATGTTGAACGGTGGGAATAGAATTCTGAAACATAATTGTTCGATTGATTT
1 AAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAATTGTTTAATTGATTT
* *
31245425 ATCATTGGAAATAG
66 CTCATTGGAAACAG
* * *
31245439 AAAATCAAACAAATTCTGTTGAACGATAGGAATAAAATCCTGAAACATAATTTTTTTAATTGATT
1 AAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAA-TTGTTTAATTGATT
**
31245504 TCTGTTTGGAAACAG
65 TCTCATTGGAAACAG
* * * * * *
31245519 AAAATCAAACAAATTTTGTTGGACGGTAGGAATAAAATCTTGAAATAGAATTGTTTAATTAATTT
1 AAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAATTGTTTAATTGATTT
31245584 CT
66 CT
31245586 ATTTACAAAT
Statistics
Matches: 124, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
79 58 0.47
80 66 0.53
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (79 bp):
AAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAATTGTTTAATTGATTT
CTCATTGGAAACAG
Done.