Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 278 of 290
Found at i:88923246 original size:128 final size:126
Alignment explanation
Indices: 88923001--88923253 Score: 389
Period size: 128 Copynumber: 2.0 Consensus size: 126
88922991 TACTGTCTCA
* ** *
88923001 TTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAAAAA
1 TTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTCGAATGAAAAA
88923066 ATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTTG
66 ATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTTG
* * *
88923127 TTTTAATTTAAGAAAACTTGGACGAAATTTCACAAGGATATTCCATATTTCAGTTGAATGAAAAA
1 TTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTCGAATG--AAA
* * * *
88923192 AAATCGAAACCCAGCACGATTGGGCACGATCTCTTAAACTTCCAAACACGAAATATTTCCTT
64 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTT
88923254 ATGTGGAGAG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
126 53 0.46
128 61 0.54
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (126 bp):
TTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCAGTCGAATGAAAAA
ATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTTG
Found at i:88923443 original size:13 final size:13
Alignment explanation
Indices: 88923412--88923448 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
88923402 ATGAAACAAT
*
88923412 AAAATATGAATAC
1 AAAATATGAAAAC
88923425 --AATATGAAAAC
1 AAAATATGAAAAC
88923436 AAAATATGAAAAC
1 AAAATATGAAAAC
88923449 TAGAAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (13 bp):
AAAATATGAAAAC
Found at i:88923633 original size:26 final size:26
Alignment explanation
Indices: 88923554--88923635 Score: 67
Period size: 28 Copynumber: 3.0 Consensus size: 26
88923544 ATAAAAACTG
* *
88923554 ATAATATATGAACGATTATTT-AAATAT
1 ATAATATAT-AAC-ATAATTTCAAATAA
* * * *
88923581 ATAATATGTAAGAAGAAATTCGAAATAA
1 ATAATATATAA-CATAATTTC-AAATAA
88923609 ATAATATATAACATAATTTCAAATAA
1 ATAATATATAACATAATTTCAAATAA
88923635 A
1 A
88923636 ACAAATTAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
26 13 0.31
27 14 0.33
28 15 0.36
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (26 bp):
ATAATATATAACATAATTTCAAATAA
Found at i:88924036 original size:16 final size:16
Alignment explanation
Indices: 88923997--88924036 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
88923987 ATAAAAGAGG
88923997 ATTTTAAAATAAATAA
1 ATTTTAAAATAAATAA
*
88924013 ATTGTAAAATAAA-ACA
1 ATTTTAAAATAAATA-A
88924029 ATTTTAAA
1 ATTTTAAA
88924037 TATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTTAAAATAAATAA
Found at i:88924153 original size:17 final size:18
Alignment explanation
Indices: 88924133--88924166 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88924123 ATAATAAATC
88924133 AATTA-AAAAAATAAAAG
1 AATTACAAAAAATAAAAG
*
88924150 AATTACAAAGAATAAAA
1 AATTACAAAAAATAAAA
88924167 AGGTAAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (18 bp):
AATTACAAAAAATAAAAG
Found at i:88925850 original size:177 final size:176
Alignment explanation
Indices: 88925574--88925978 Score: 576
Period size: 177 Copynumber: 2.3 Consensus size: 176
88925564 CTGGAATATA
* * * * *
88925574 AAATTTGCAATTTTCAGCCTATCACCCTACTGCTTAGGAGGTTAAGGCTCGTATCTTCAAACTGC
1 AAATTTGTAATTTACAGCCTGTAACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAAACTGC
88925639 TCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGAGACATGGAGA
66 TCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGAGACATGGAGA
*
88925704 TAAGACTCTCCATTTTTGATCTGCTCCATAGCCGATACATGGAGAT
131 TAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGAT
** * *
88925750 AAGATTTGTAATTTACAGCCTGTAACCCTACTATTTAGGGGGTTAAGGCTCGTATCTTTAACCTG
1 AA-ATTTGTAATTTACAGCCTGTAACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAAACTG
* * * * * * * *
88925815 CTCTCTTGTTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCTGATACATTGAT
65 CTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGAGACATGGAG
* * * *
88925880 ATAAGACTCGCCATTTTTTATTTGCTCCATAGCTGATACATGGTGAT
130 ATAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGAT
* *
88925927 AAATTCTGTAATTTGCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCG
1 AAATT-TGTAATTTACAGCCTGTAACCCTACTGCTTAGGGGGTTAAGGCTCG
88925979 CTGTCTTCGA
Statistics
Matches: 201, Mismatches: 26, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
176 5 0.02
177 196 0.98
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (176 bp):
AAATTTGTAATTTACAGCCTGTAACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAAACTGC
TCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGAGACATGGAGA
TAAGACTCGCCATTTTTGATCTGCTCCATAGCCGATACATGGAGAT
Found at i:88926241 original size:64 final size:64
Alignment explanation
Indices: 88926135--88926257 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 64
88926125 TATCTATACT
* * *
88926135 TATGCCAAATAATTAGGATGCTATGATTGCAATGAATCAAATGCTCTTAACTAGATGTAATGCG
1 TATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCCCCTAACTAGATGTAATGCG
* *
88926199 TATGTCAAATAATTAGGATGTTATGATTGAAATGAATCAAATGCCCCTAACTAGATGTA
1 TATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCCCCTAACTAGATGTA
88926258 TCATGAATGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (64 bp):
TATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCCCCTAACTAGATGTAATGCG
Found at i:88927953 original size:32 final size:32
Alignment explanation
Indices: 88927912--88928023 Score: 97
Period size: 32 Copynumber: 3.6 Consensus size: 32
88927902 GAGAATATTG
*
88927912 TTTTAATAAATTTAATATTTTATCTAGATAGTA
1 TTTT-ATAAATTTAATATTTTATCTAGATAATA
* * *
88927945 TTTTATAAATTTAATATTGATAT-GAGATATTA
1 TTTTATAAATTTAATATT-TTATCTAGATAATA
** * *
88927977 AATT-T-AATTTAATA-GTTATCTTGATAATA
1 TTTTATAAATTTAATATTTTATCTAGATAATA
*
88928006 TTTTATTAATTTAATATT
1 TTTTATAAATTTAATATT
88928024 AATGTAATTA
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
28 3 0.05
29 8 0.13
30 10 0.16
31 10 0.16
32 23 0.38
33 7 0.11
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (32 bp):
TTTTATAAATTTAATATTTTATCTAGATAATA
Found at i:88936446 original size:18 final size:17
Alignment explanation
Indices: 88936394--88936446 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
88936384 GGCAAATGGG
88936394 TTTGATTTGGGGAAAAT
1 TTTGATTTGGGGAAAAT
* *
88936411 TTAGGGTTTAGGGG-AAAT
1 TT-TGATTT-GGGGAAAAT
88936429 TTTGATTTGGGGGAAAAT
1 TTTGATTT-GGGGAAAAT
88936447 AAGGGTTTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 10 0.36
18 14 0.50
19 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (17 bp):
TTTGATTTGGGGAAAAT
Found at i:88936615 original size:3 final size:3
Alignment explanation
Indices: 88936607--88936883 Score: 52
Period size: 3 Copynumber: 92.3 Consensus size: 3
88936597 GTCCTTTTTG
* * * *
88936607 TTA TTA TTA TTA TTA TTA TTA CCCTA CTG TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * **
88936654 TTA CTA TT- TTC TTT TTA TTA TCA CTA TCA TTA TTA GCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * ** **
88936700 TCA TTA TCT- TTG TTA GTA TTT TTC TTA TTA ACA ACA -TA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
88936744 TTA TTA TTA CTAA TGTA TT- TTT TTA TTA GTA TTA -TA TT- TTCA TTA
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
** * * * * **
88936789 TTA CGTTA TTCA AAA TGAA TAA ATA TTA TTA CTA TTA TTA TTA TCG TTA
1 TTA --TTA TT-A TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * * *
88936838 CTA TTA -TA TTA TTA GCA -AA TTA TTA TTA TT- TTA TTT TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
88936883 T
1 T
88936884 CCTTATTAAC
Statistics
Matches: 199, Mismatches: 55, Indels: 40
0.68 0.19 0.14
Matches are distributed among these distances:
2 16 0.08
3 167 0.84
4 11 0.06
5 5 0.03
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:88937437 original size:40 final size:40
Alignment explanation
Indices: 88937385--88937470 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
88937375 TATAAACATT
*
88937385 TTTTATTATATTTTCAATTTGTCTATTGTTTTAAGAATTG
1 TTTTAATATATTTTCAATTTGTCTATTGTTTTAAGAATTG
** * * * *
88937425 TTTTAATATATTTTTTATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTCTATTGTTTTAAGAATTG
88937465 TTTTAA
1 TTTTAA
88937471 ATGTATTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.65
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTCTATTGTTTTAAGAATTG
Found at i:88940662 original size:129 final size:129
Alignment explanation
Indices: 88940499--88940888 Score: 665
Period size: 129 Copynumber: 3.0 Consensus size: 129
88940489 TCTCATTACA
88940499 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
1 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
*
88940564 AATTTTAATAATGTATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTAT
66 AATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTAT
*
88940628 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTTATTT
1 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
* * *
88940693 AATTTTAATAATGCATACTTTATCTGGATGAAGTATGCATTAGCAGATTTACTAATATGATTAT
66 AATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTAT
*
88940757 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
1 ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
* * * **
88940822 AAGTTTAATAATGCATACTTTAGCCTGAAAAAG-AGTGTATTAGCAGATTCACTAATATGATTAT
66 AATTTTAATAATGCATACTTTATCCGGATGAAGTA-TGTATTAGCAGATTCACTAATATGATTAT
88940886 ATA
1 ATA
88940889 TATTTACGGA
Statistics
Matches: 245, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
128 1 0.00
129 244 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.48
Consensus pattern (129 bp):
ATAATAGTTATTTTTCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
AATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTAT
Found at i:88943716 original size:19 final size:18
Alignment explanation
Indices: 88943689--88943724 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
88943679 AAGCATAAAA
88943689 ATAACACTAAACAAAATAT
1 ATAACACT-AACAAAATAT
*
88943708 ATAATACTAACAAAATA
1 ATAACACTAACAAAATA
88943725 ATATTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAACACTAACAAAATAT
Found at i:88944077 original size:18 final size:19
Alignment explanation
Indices: 88944031--88944075 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
88944021 GCTCCTCTTT
88944031 TTTTTTTTAAAACAGTTTA
1 TTTTTTTTAAAACAGTTTA
*
88944050 TTTTTTTTAATACAGTTTA
1 TTTTTTTTAAAACAGTTTA
88944069 TTTTTTT
1 TTTTTTT
88944076 AACTAATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTTTTTAAAACAGTTTA
Found at i:88946473 original size:141 final size:141
Alignment explanation
Indices: 88946166--88946767 Score: 803
Period size: 141 Copynumber: 4.3 Consensus size: 141
88946156 CAAAACAATG
* * * * * *
88946166 CTAAGACGACA-TTTATGGGGCGACACTTTCCTAACTATTAGGATAGACTAGCCAACATACACTT
1 CTAAGACGACACTTT-TGGGGCGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTT
* * * *
88946230 TGGCCAGCTCTTTGTATAAGGGTTGGGACATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGC
65 TGGCCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGC
*
88946295 -TTTGTCTAGTC
130 TTTTGTGTAGTC
88946306 CTAAGACGACACTTTTGGGGCTGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTT
1 CTAAGACGACACTTTTGGGGC-GACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTT
* * *
88946371 TGGGCAACTCTTTGTATAAGGGTTGGGATATGTATGCTTAAGGCGACGCTTGAATAAGAGTTGGC
65 TGGCCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGC
*
88946436 TTTTGTATAGTC
130 TTTTGTGTAGTC
* * * **
88946448 CTAAGACGACACTTTTGTGACGACACTTTCCTAAGTGTTGGGATAGAGTTGCAAACATATGCTTT
1 CTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTTT
* *
88946513 GGGCAACTCTTTGTATAAGGGTTGGAATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCT
66 GGCCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCT
88946578 TTTGTGTAGTC
131 TTTGTGTAGTC
* * * *
88946589 CTAAGACAACACTTTTGTGGTGACACTTTCCTAAGTGTT--G-T-GA--T-AG-AC-TACACTTT
1 CTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTTT
* * * *
88946645 AGCCAACTCTTTATATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTAGCT
66 GGCCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCT
88946710 TTTGTGTAGTC
131 TTTGTGTAGTC
* * * *
88946721 CTAAGATGCCACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGA
1 CTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGA
88946768 CTATGCTTTA
Statistics
Matches: 413, Mismatches: 42, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
132 109 0.26
133 2 0.00
134 1 0.00
135 2 0.00
136 2 0.00
137 2 0.00
138 1 0.00
139 1 0.00
140 17 0.04
141 247 0.60
142 29 0.07
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (141 bp):
CTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACACTTT
GGCCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCT
TTTGTGTAGTC
Found at i:88946753 original size:132 final size:132
Alignment explanation
Indices: 88946516--88946804 Score: 463
Period size: 132 Copynumber: 2.2 Consensus size: 132
88946506 ATGCTTTGGG
*
88946516 CAACTCTTTGTATAAGGGTTG-GAATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTT
1 CAACTCTTTGTATAAGGGTTGAG-ATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTAGCTTT
* ** *
88946580 TGTGTAGTCCTAAGACAACACTTTTGTGGTGACACTTTCCTAAGTGTTGTGATAGACTACACTTT
65 TGTGTAGTCCTAAGACAACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGACTACACTTT
88946645 AGC
130 AGC
*
88946648 CAACTCTTTATATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTAGCTTTT
1 CAACTCTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTAGCTTTT
*** **
88946713 GTGTAGTCCTAAGATGCCACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGACTATGCTTTA
66 GTGTAGTCCTAAGACAACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGACTACACTTTA
88946778 GC
131 GC
88946780 CAACTCTTTGTATAAGGGTTGAGAT
1 CAACTCTTTGTATAAGGGTTGAGAT
88946805 TTGGCCAACT
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
132 143 0.99
133 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (132 bp):
CAACTCTTTGTATAAGGGTTGAGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTAGCTTTT
GTGTAGTCCTAAGACAACACTTTTGAGGCAACACTTTCCTAAGTGTTGGGATAGACTACACTTTA
GC
Found at i:88947266 original size:37 final size:37
Alignment explanation
Indices: 88947224--88947310 Score: 138
Period size: 37 Copynumber: 2.4 Consensus size: 37
88947214 ATGGTTTAAA
*
88947224 ATTTTAGGGTTTTGTGTTTATGGATTTGGGGTTTAGG
1 ATTTTAGGGTTTTGTGATTATGGATTTGGGGTTTAGG
* * *
88947261 ATTTTAGGATTTTGTGATTATGGGTTTGGGTTTTAGG
1 ATTTTAGGGTTTTGTGATTATGGATTTGGGGTTTAGG
88947298 ATTTTAGGGTTTT
1 ATTTTAGGGTTTT
88947311 TTTAATATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (37 bp):
ATTTTAGGGTTTTGTGATTATGGATTTGGGGTTTAGG
Found at i:88959718 original size:22 final size:21
Alignment explanation
Indices: 88959693--88959736 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
88959683 AACTCCTATC
*
88959693 CAGCAACCAAACACTCTCATTT
1 CAGC-ACCAAACACTCCCATTT
* *
88959715 CAGCTCTAAACACTCCCATTT
1 CAGCACCAAACACTCCCATTT
88959736 C
1 C
88959737 GGCTCCTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.32, C:0.39, G:0.05, T:0.25
Consensus pattern (21 bp):
CAGCACCAAACACTCCCATTT
Found at i:88959725 original size:21 final size:21
Alignment explanation
Indices: 88959701--88959741 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
88959691 TCCAGCAACC
*
88959701 AAACACTCTCATTTCAGCTCT
1 AAACACTCCCATTTCAGCTCT
*
88959722 AAACACTCCCATTTCGGCTC
1 AAACACTCCCATTTCAGCTC
88959742 CTGTCTAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.37, G:0.07, T:0.29
Consensus pattern (21 bp):
AAACACTCCCATTTCAGCTCT
Found at i:88962387 original size:7 final size:7
Alignment explanation
Indices: 88962362--88962393 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
88962352 ATTCAATCTT
88962362 TATTTTA
1 TATTTTA
88962369 -ATTTTA
1 TATTTTA
88962375 -ATTTTA
1 TATTTTA
88962381 TATTTTA
1 TATTTTA
88962388 TATTTT
1 TATTTT
88962394 TTTAGTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTTA
Found at i:88962582 original size:37 final size:36
Alignment explanation
Indices: 88962513--88962594 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 36
88962503 TCTATCGCAA
* *
88962513 GTTATCTTAGACGGGTTTATCCTAACCTTTTTTAAAG
1 GTTATCTTAGACCGATTTATCCTAACCTTTTTT-AAG
88962550 GTTATCTTAGACACGATTTAT-CTCAACC-TTTTTAAG
1 GTTATCTTAGAC-CGATTTATCCT-AACCTTTTTTAAG
*
88962586 TTTATCTTA
1 GTTATCTTA
88962595 ACATTTCTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 11 0.28
37 19 0.47
38 10 0.25
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (36 bp):
GTTATCTTAGACCGATTTATCCTAACCTTTTTTAAG
Found at i:88962976 original size:32 final size:32
Alignment explanation
Indices: 88962940--88963003 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
88962930 CATACATTAT
88962940 TAGGAAACAAAAATCGCCTACTTCACAGGAGA
1 TAGGAAACAAAAATCGCCTACTTCACAGGAGA
*
88962972 TAGGAAACAAAAATCGCCTACTTCATAGGAGA
1 TAGGAAACAAAAATCGCCTACTTCACAGGAGA
88963004 AAAAAACTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (32 bp):
TAGGAAACAAAAATCGCCTACTTCACAGGAGA
Found at i:88966185 original size:36 final size:35
Alignment explanation
Indices: 88966132--88966206 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 35
88966122 AAGTTTCTTT
*
88966132 TTTTTATTTATTCTTATTATT-CTTATTTATTTTCA
1 TTTTTATTTATTATTATTATTACTTA-TTATTTTCA
* * *
88966167 TTTTTATCTTTTTATTATTTTTACTTATTATTTTCC
1 TTTTTAT-TTATTATTATTATTACTTATTATTTTCA
88966203 TTTT
1 TTTT
88966207 AAGTTACATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 7 0.21
36 23 0.68
37 4 0.12
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.73
Consensus pattern (35 bp):
TTTTTATTTATTATTATTATTACTTATTATTTTCA
Found at i:88966197 original size:16 final size:16
Alignment explanation
Indices: 88966145--88966198 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
88966135 TTATTTATTC
* *
88966145 TTATTATTCTTATTTA
1 TTATTATTTTTACTTA
*
88966161 TT-TTCATTTTTATCTTT
1 TTATT-ATTTTTA-CTTA
88966178 TTATTATTTTTACTTA
1 TTATTATTTTTACTTA
88966194 TTATT
1 TTATT
88966199 TTCCTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 2 0.06
16 16 0.52
17 11 0.35
18 2 0.06
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTATTTTTACTTA
Found at i:88972430 original size:18 final size:17
Alignment explanation
Indices: 88972397--88972435 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
88972387 TTGTATAAAT
88972397 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
88972415 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
88972432 TGTG
1 TGTG
88972436 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:88972692 original size:23 final size:23
Alignment explanation
Indices: 88972662--88972758 Score: 142
Period size: 23 Copynumber: 4.3 Consensus size: 23
88972652 GTGTTATTGA
88972662 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* *
88972685 TCAATGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
88972707 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
88972730 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
88972753 TCAGTG
1 TCAGTG
88972759 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.29
23 47 0.71
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:88972727 original size:45 final size:45
Alignment explanation
Indices: 88972663--88972751 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
88972653 TGTTATTGAT
* *
88972663 CAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
*
88972708 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACAT
88972752 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAATGGTAGCTTCGGCTACATC
Found at i:88979760 original size:18 final size:17
Alignment explanation
Indices: 88979727--88979765 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
88979717 TTGTATAAAT
88979727 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
88979745 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
88979762 TGTG
1 TGTG
88979766 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:88980018 original size:23 final size:22
Alignment explanation
Indices: 88979992--88980064 Score: 121
Period size: 23 Copynumber: 3.3 Consensus size: 22
88979982 GTGTTATTGA
88979992 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACA-T
88980015 TCAGTGGTAGCTTCGGCTACA-
1 TCAGTGGTAGCTTCGGCTACAT
88980036 TCAGTGGTAGCTTCGGCTACAT
1 TCAGTGGTAGCTTCGGCTACAT
88980058 ATCAGTG
1 -TCAGTG
88980065 TGGCACTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.44
23 27 0.56
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (22 bp):
TCAGTGGTAGCTTCGGCTACAT
Found at i:88980041 original size:21 final size:21
Alignment explanation
Indices: 88979991--88980057 Score: 116
Period size: 21 Copynumber: 3.1 Consensus size: 21
88979981 AGTGTTATTG
88979991 ATCAGTGGTAGCTTCGGCTAC
1 ATCAGTGGTAGCTTCGGCTAC
88980012 ATTTCAGTGGTAGCTTCGGCTAC
1 A--TCAGTGGTAGCTTCGGCTAC
88980035 ATCAGTGGTAGCTTCGGCTAC
1 ATCAGTGGTAGCTTCGGCTAC
88980056 AT
1 AT
88980058 ATCAGTGTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
21 23 0.52
23 21 0.48
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (21 bp):
ATCAGTGGTAGCTTCGGCTAC
Found at i:88982848 original size:46 final size:46
Alignment explanation
Indices: 88982788--88983091 Score: 327
Period size: 46 Copynumber: 7.0 Consensus size: 46
88982778 TTTGAAGTGA
* * * * * * *
88982788 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
** * * * *
88982834 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
88982880 TGCCATGGTATCTTTCAACCGTGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
88982926 TGCCATGGTATCTTTCAACCATTGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
88982972 TGTCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
88983010 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---CA-A--AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
88983048 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAG
88983092 AGAGCACATT
Statistics
Matches: 230, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
38 68 0.30
39 2 0.01
40 3 0.01
41 1 0.00
43 2 0.01
44 4 0.02
45 4 0.02
46 146 0.63
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
Found at i:88983018 original size:38 final size:38
Alignment explanation
Indices: 88982967--88983080 Score: 210
Period size: 38 Copynumber: 3.0 Consensus size: 38
88982957 CATCTCATAT
*
88982967 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
88983005 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
88983043 AAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
88983081 TTTCATATCA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 74 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:88986487 original size:53 final size:53
Alignment explanation
Indices: 88986406--88986556 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
88986396 CTTACACGGT
* *
88986406 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
88986461 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
88986514 TCACATTGCACCGATGCCATAGCCCAGCTATGGTTTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
88986557 GTGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:88988530 original size:26 final size:26
Alignment explanation
Indices: 88988469--88988530 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 26
88988459 ACATATTTTC
**
88988469 TCAAAATTTTACCAGGGGCAAAATTG
1 TCAAAATTTTACCAGGGGCAAAATCA
* * * **
88988495 TTAAAGTTTTACCATGGTTAAAATCA
1 TCAAAATTTTACCAGGGGCAAAATCA
88988521 TCAAAATTTT
1 TCAAAATTTT
88988531 GCTAGAGGTA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGCAAAATCA
Found at i:88993716 original size:155 final size:154
Alignment explanation
Indices: 88993433--88993744 Score: 453
Period size: 155 Copynumber: 2.0 Consensus size: 154
88993423 TTTTTTAAAT
* * *
88993433 TTTGTTGCATATTTTGGGAATCTTGAGATGATCTCAGTTTTCGAAGGCTTAAAATATCGTGTCTT
1 TTTGTCGCATATTTTGGAAATCTTGAGATGATCTCAGTTTTCGAAGGCTTAAAATATCGTGTCCT
* * * * * *
88993498 AACGTGCTGGATGTGGTATTTTATTCCTTTGGGACGAGTGAAGCTTGAAATTCGACTCAAGTTGT
66 AACGTACTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAAGCTTAAAATCCAAATCAAGTTGT
88993563 GCACACATTTTTTAAGGGGATCGTA
131 GCACACA-TTTTTAAGGGGATCGTA
* * * *
88993588 TTTGTCGCGTATTTTGGAAATCTTGAGGTGATCTCAGTTTTTGGAGGCTTAAAATATCGTGTCCT
1 TTTGTCGCATATTTTGGAAATCTTGAGATGATCTCAGTTTTCGAAGGCTTAAAATATCGTGTCCT
* *
88993653 AACGTACTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAAATCGAGTTGT
66 AACGTACTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAAGCTTAAAATCCAAATCAAGTTGT
** *
88993718 TTACGCATTTTTAAGGGGATCGTA
131 GCACACATTTTTAAGGGGATCGTA
88993742 TTT
1 TTT
88993745 TAATATTATT
Statistics
Matches: 139, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
154 20 0.14
155 119 0.86
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (154 bp):
TTTGTCGCATATTTTGGAAATCTTGAGATGATCTCAGTTTTCGAAGGCTTAAAATATCGTGTCCT
AACGTACTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAAGCTTAAAATCCAAATCAAGTTGT
GCACACATTTTTAAGGGGATCGTA
Found at i:89001371 original size:20 final size:20
Alignment explanation
Indices: 89001354--89001391 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
89001344 ATATAAAATT
89001354 TTATAAAAATCATAAAAAAA
1 TTATAAAAATCATAAAAAAA
*
89001374 TTATAAAAAGCATAAAAA
1 TTATAAAAATCATAAAAA
89001392 GACCCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (20 bp):
TTATAAAAATCATAAAAAAA
Found at i:89001575 original size:9 final size:9
Alignment explanation
Indices: 89001561--89001616 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
89001551 TTTTGGTATG
89001561 ATAATTTTT
1 ATAATTTTT
89001570 ATAATTTTTTT
1 ATAA--TTTTT
*
89001581 ATAAATTTT
1 ATAATTTTT
*
89001590 ATATTTCTTT
1 ATAATT-TTT
*
89001600 ATATTTTTT
1 ATAATTTTT
89001609 ATAATTTT
1 ATAATTTT
89001617 CTTACGACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 22 0.55
10 9 0.22
11 9 0.22
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (9 bp):
ATAATTTTT
Found at i:89001600 original size:10 final size:9
Alignment explanation
Indices: 89001565--89001616 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
89001555 GGTATGATAA
89001565 TTTTTATAATT
1 TTTTTAT-A-T
*
89001576 TTTTTATAA
1 TTTTTATAT
*
89001585 ATTTTATAT
1 TTTTTATAT
89001594 TTCTTTATAT
1 TT-TTTATAT
89001604 TTTTTATAAT
1 TTTTTAT-AT
89001614 TTT
1 TTT
89001617 CTTACGACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 13 0.37
10 15 0.43
11 7 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTATAT
Found at i:89001608 original size:19 final size:19
Alignment explanation
Indices: 89001561--89001611 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
89001551 TTTTGGTATG
*
89001561 ATAATTTTTATAATTTTTTT
1 ATAATTTTTAT-ATTTCTTT
*
89001581 ATAAATTTTATATTTCTTT
1 ATAATTTTTATATTTCTTT
*
89001600 ATATTTTTTATA
1 ATAATTTTTATA
89001612 ATTTTCTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATAATTTTTATATTTCTTT
Found at i:89001683 original size:48 final size:47
Alignment explanation
Indices: 89001578--89001679 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 47
89001568 TTATAATTTT
* *
89001578 TTTAT-AAATTTTATATTTCTTTATATTTTTTATAATTTTCTTACGAC
1 TTTATAAAATTTTATATTTCTCTATATATTTTAT-ATTTTCTTACGAC
*
89001625 TTTATAAAATTTTATATATT-TCTATATATTTTAT-TTTT-TTACGATT
1 TTTATAAAATTTTATAT-TTCTCTATATATTTTATATTTTCTTACGA-C
89001671 TTTATAAAA
1 TTTATAAAA
89001680 AATTCTAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
45 6 0.12
46 13 0.27
47 5 0.10
48 23 0.47
49 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (47 bp):
TTTATAAAATTTTATATTTCTCTATATATTTTATATTTTCTTACGAC
Found at i:89012984 original size:26 final size:25
Alignment explanation
Indices: 89012955--89013027 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
89012945 TTTCAACCTT
89012955 TTTTAAATTTGTTATTTATTTATTCA
1 TTTTAAATTT-TTATTTATTTATTCA
* *
89012981 TTTTAATAGTTTTATATA-TTATTCA
1 TTTTAA-ATTTTTATTTATTTATTCA
89013006 TTTTAAACTATTTTATTTATTT
1 TTTTAAA-T-TTTTATTTATTT
89013028 TAAATTCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.03
25 13 0.33
26 20 0.51
27 5 0.13
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTAAATTTTTATTTATTTATTCA
Found at i:89013039 original size:44 final size:44
Alignment explanation
Indices: 89012973--89013106 Score: 117
Period size: 44 Copynumber: 2.9 Consensus size: 44
89012963 TTGTTATTTA
* * *
89012973 TTTATTCATTTTAATAGTTTTATATATTATTCATTTTAAACT-AT
1 TTTATTTATTTTAA-ATTTTTATATATTATTTATTTTAAACTGAT
* * * *
89013017 TTTATTTATTTTAAATTCTTTATACACTATTTATATTAAACTGCT
1 TTTATTTATTTTAAATT-TTTATATATTATTTATTTTAAACTGAT
*
89013062 TTATATTATTCATTTTAAATTGTTTTAGATATTATTTATTTTAAA
1 TT-TA-T-TT-ATTTTAAA-T-TTTTATATATTATTTATTTTAAA
89013107 TTGTTCCATA
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.03
44 33 0.46
45 3 0.04
46 2 0.03
47 1 0.01
48 2 0.03
49 8 0.11
50 19 0.27
51 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (44 bp):
TTTATTTATTTTAAATTTTTATATATTATTTATTTTAAACTGAT
Found at i:89013102 original size:26 final size:26
Alignment explanation
Indices: 89013018--89013402 Score: 191
Period size: 26 Copynumber: 15.2 Consensus size: 26
89013008 TTAAACTATT
* *
89013018 TTATTTATTTTAAATT-CTTTATACA
1 TTATTTATTTTAAATTGTTTTATATA
* * * *
89013043 CTATTTATATTAAACTG-CTT-TATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
89013067 TTATTCATTTTAAATTGTTTTAGATA
1 TTATTTATTTTAAATTGTTTTATATA
*
89013093 TTATTTATTTTAAATTGTTCCATATATA
1 TTATTTATTTTAAATTGTT--TTATATA
* * *
89013121 TTATTTATTTTGAACTGCTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
89013147 TTATTTTATTTTAAAACTG--TTCTATA
1 TTA-TTTATTTT-AAATTGTTTTATATA
* * *
89013173 GTATTTATTTTAGATTTTTTTATTACATA
1 TTATTTATTTTAAATTGTTTTA-T--ATA
* * * *
89013202 TTATTTCTTTTAAAAATGCTGTATATA
1 TTATTTATTTT-AAATTGTTTTATATA
* *
89013229 TTATTTATTTTAAATTG-CTT-TAGA
1 TTATTTATTTTAAATTGTTTTATATA
* ** * *
89013253 TTATTTATTTCAAACGGTTTTGTATT
1 TTATTTATTTTAAATTGTTTTATATA
*
89013279 TTATTTATGTT-AA-T-TTTT-TATA
1 TTATTTATTTTAAATTGTTTTATATA
*
89013301 TTGTTTATTTTAACCATT-TTTTATAT-
1 TTATTTATTTTAA--ATTGTTTTATATA
* *
89013327 TT-TTTA--TT---TT-TTTCATGTA
1 TTATTTATTTTAAATTGTTTTATATA
* ** *
89013346 TTATTTATTTCAACCT-TTTTATCTA
1 TTATTTATTTTAAATTGTTTTATATA
* *
89013371 TTATTTACTTTGAATTGTTTTATATA
1 TTATTTATTTTAAATTGTTTTATATA
89013397 TTATTT
1 TTATTT
89013403 TGTTTTGTTT
Statistics
Matches: 271, Mismatches: 61, Indels: 55
0.70 0.16 0.14
Matches are distributed among these distances:
18 8 0.03
19 2 0.01
20 4 0.01
22 13 0.05
23 7 0.03
24 36 0.13
25 54 0.20
26 77 0.28
27 25 0.09
28 26 0.10
29 13 0.05
30 6 0.02
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTTTATATA
Found at i:89013184 original size:80 final size:78
Alignment explanation
Indices: 89013019--89013242 Score: 206
Period size: 81 Copynumber: 2.8 Consensus size: 78
89013009 TAAACTATTT
* * * *
89013019 TATTTATTTTAAATTCTT-TATACACTATTTATATTAAACTGC-TT-TATATTATTCATTTT-AA
1 TATTTATTTTAAATTCTTATATATATTATTTATTTTAAACTGCTTTATATATTATTTATTTTAAA
* * *
89013080 ATTGTTTTAGATAT
66 ACTGTTCTA-ATAG
* *
89013094 TATTTATTTTAAATTGTTCCATATATATTATTTATTTTGAACTGCTTTATATATTATTTTATTTT
1 TATTTATTTTAAATTCTT--ATATATATTATTTATTTTAAACTGCTTTATATATTA-TTTATTTT
89013159 AAAACTGTTCT-ATAG
63 AAAACTGTTCTAATAG
* * * * * *
89013174 TATTTATTTTAGATTTTTTTATTACATATTATTTCTTTTAAAAATGCTGTATATATTATTTATTT
1 TATTTATTTTA-A-ATTCTTA-TATATATTATTTATTTT-AAACTGCTTTATATATTATTTATTT
89013239 TAAA
62 TAAA
89013243 TTGCTTTAGA
Statistics
Matches: 122, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
75 17 0.14
78 20 0.16
79 2 0.02
80 22 0.18
81 34 0.28
82 27 0.22
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (78 bp):
TATTTATTTTAAATTCTTATATATATTATTTATTTTAAACTGCTTTATATATTATTTATTTTAAA
ACTGTTCTAATAG
Found at i:89013258 original size:80 final size:77
Alignment explanation
Indices: 89013018--89013262 Score: 212
Period size: 80 Copynumber: 3.1 Consensus size: 77
89013008 TTAAACTATT
* * * * * *
89013018 TTATTTATTTTAAATTCTT-TATAC--ACTATTTATATTAAACTGCT-T-TATATTATTCATTTT
1 TTATTTATTTTAAATTGTTCCATACATATTATTTATTTTAAAATGCTGTATATATTATTTATTTT
89013078 AAATTGTTTTAGATA
66 AAATTG-TTTAG--A
* * * *
89013093 TTATTTATTTTAAATTGTTCCATATATATTATTTATTTTGAACTGCTTTATATATTATTTTATTT
1 TTATTTATTTTAAATTGTTCCATACATATTATTTATTTTAAAATGCTGTATATATTA-TTTATTT
* *
89013158 TAAAACTGTTCTATA
65 T-AAATTGTT-TAGA
* * * ** *
89013173 GTATTTATTTTAGATTTTTTTATTACATATTATTTCTTTTAAAAATGCTGTATATATTATTTATT
1 TTATTTATTTTAAATTGTTCCA-TACATATTATTTATTTT-AAAATGCTGTATATATTATTTATT
89013238 TTAAATTGCTTTAGA
64 TTAAATTG-TTTAGA
89013253 TTATTTATTT
1 TTATTTATTT
89013263 CAAACGGTTT
Statistics
Matches: 137, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
75 18 0.13
76 3 0.02
78 17 0.12
79 1 0.01
80 42 0.31
81 34 0.25
82 22 0.16
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (77 bp):
TTATTTATTTTAAATTGTTCCATACATATTATTTATTTTAAAATGCTGTATATATTATTTATTTT
AAATTGTTTAGA
Found at i:89013295 original size:22 final size:22
Alignment explanation
Indices: 89013270--89013313 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
89013260 TTTCAAACGG
*
89013270 TTTTGTATTTTATTTATGTTAA
1 TTTTGTATATTATTTATGTTAA
* * *
89013292 TTTTTTATATTGTTTATTTTAA
1 TTTTGTATATTATTTATGTTAA
89013314 CCATTTTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTTGTATATTATTTATGTTAA
Found at i:89015258 original size:29 final size:29
Alignment explanation
Indices: 89015189--89015263 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
89015179 AACATATGTA
*
89015189 TGACCAAAATATTAAATTTAATAACGTTAG
1 TGACCAAAATA-AAAATTTAATAACGTTAG
* *
89015219 TGACTAAAATAGAAAATTTTA-AAC-TTAAG
1 TGACCAAAATA-AAAATTTAATAACGTT-AG
89015248 TGACCAAAATAAAAAT
1 TGACCAAAATAAAAAT
89015264 ACACTAATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 7 0.18
29 15 0.38
30 17 0.44
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.29
Consensus pattern (29 bp):
TGACCAAAATAAAAATTTAATAACGTTAG
Found at i:89020576 original size:14 final size:14
Alignment explanation
Indices: 89020557--89020583 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89020547 ACAAACTGGG
89020557 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
89020571 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
89020584 TAAGACTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:89021754 original size:17 final size:16
Alignment explanation
Indices: 89021732--89021767 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
89021722 ATTATAAAAA
89021732 TATATTTAATAATTTTT
1 TATATTTAA-AATTTTT
*
89021749 TATATTTTAAATTTTT
1 TATATTTAAAATTTTT
89021765 TAT
1 TAT
89021768 TCATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATTTAAAATTTTT
Found at i:89026841 original size:4 final size:4
Alignment explanation
Indices: 89026832--89026862 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
89026822 TGAAGAAGAA
*
89026832 TATG TATG TACG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
89026863 ATAAAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:89028674 original size:31 final size:32
Alignment explanation
Indices: 89028634--89028701 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
89028624 GACTAATATG
* *
89028634 TCTATTTTTTAAGTAAAAAG-ACAAAATACAA
1 TCTAATTTTTAACTAAAAAGAACAAAATACAA
*
89028665 TCTAATTTTTAACTAAAAAGAATAAAATACAA
1 TCTAATTTTTAACTAAAAAGAACAAAATACAA
89028697 TCTAA
1 TCTAA
89028702 CTCCTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 18 0.55
32 15 0.45
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.32
Consensus pattern (32 bp):
TCTAATTTTTAACTAAAAAGAACAAAATACAA
Found at i:89029120 original size:13 final size:12
Alignment explanation
Indices: 89029104--89029150 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
89029094 TTTATTTTTG
89029104 TATTGTTTTTTAA
1 TATT-TTTTTTAA
*
89029117 TATTTATTTTT-G
1 TATTT-TTTTTAA
89029129 TATTGTTTTTTAA
1 TATT-TTTTTTAA
89029142 TATTTTTTT
1 TATTTTTTT
89029151 CAAAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 15 0.52
13 14 0.48
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (12 bp):
TATTTTTTTTAA
Found at i:89029120 original size:25 final size:25
Alignment explanation
Indices: 89029092--89029150 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
89029082 TAGTGAGTTG
89029092 TATTTATTTTTGTATTGTTTTTTAA
1 TATTTATTTTTGTATTGTTTTTTAA
89029117 TATTTATTTTTGTATTGTTTTTTAA
1 TATTTATTTTTGTATTGTTTTTTAA
89029142 TATTT-TTTT
1 TATTTATTTT
89029151 CAAAAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.75
Consensus pattern (25 bp):
TATTTATTTTTGTATTGTTTTTTAA
Found at i:89029139 original size:12 final size:12
Alignment explanation
Indices: 89029089--89029132 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
89029079 TTTTAGTGAG
89029089 TTGTATTTATTT
1 TTGTATTTATTT
89029101 TTGTATTGT-TTT
1 TTGTATT-TATTT
*
89029113 TTAATATTTATTT
1 TT-GTATTTATTT
89029126 TTGTATT
1 TTGTATT
89029133 GTTTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (12 bp):
TTGTATTTATTT
Found at i:89034051 original size:6 final size:6
Alignment explanation
Indices: 89034034--89034068 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
89034024 CAAATGAATA
89034034 ATTTCTC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTC-C ATTTCC ATTTCC ATTTCC ATTTCC ATTT
89034069 TGAGAAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTCC
Found at i:89034138 original size:43 final size:45
Alignment explanation
Indices: 89034055--89034156 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 45
89034045 CCATTTCCAT
*
89034055 TTCCA-TT-TCCATTTTGAGAAAACCACATTCATTTCCAAATG-A
1 TTCCATTTCTCCATTTTGAGAAAACCACAATCATTTCCAAATGTA
* * *
89034097 TTCCATTTCTCCATTTTG-GAAAACCTCAATCATTTCTAAATGTT
1 TTCCATTTCTCCATTTTGAGAAAACCACAATCATTTCCAAATGTA
* *
89034141 TTACATTTCTTCATTT
1 TTCCATTTCTCCATTT
89034157 CTATTCATTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 5 0.10
43 23 0.45
44 23 0.45
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (45 bp):
TTCCATTTCTCCATTTTGAGAAAACCACAATCATTTCCAAATGTA
Found at i:89038667 original size:14 final size:14
Alignment explanation
Indices: 89038650--89038688 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
89038640 TATACATTGT
*
89038650 TTTATTTAATAATA
1 TTTATTTAATAAAA
*
89038664 TTTATTTCATAAAA
1 TTTATTTAATAAAA
89038678 TTTA-TTAATAA
1 TTTATTTAATAA
89038689 CTTTCCATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTATTTAATAAAA
Found at i:89039200 original size:13 final size:13
Alignment explanation
Indices: 89039182--89039212 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
89039172 CACCATCCAT
89039182 CTCTGATCTTGAC
1 CTCTGATCTTGAC
89039195 CTCTGATCTTGAC
1 CTCTGATCTTGAC
*
89039208 TTCTG
1 CTCTG
89039213 TTGATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.42
Consensus pattern (13 bp):
CTCTGATCTTGAC
Found at i:89052202 original size:43 final size:42
Alignment explanation
Indices: 89052138--89052263 Score: 180
Period size: 43 Copynumber: 3.0 Consensus size: 42
89052128 AGGAGTTTCT
* *
89052138 GTTTAACCCTAATGGGTTTCCGTTCAGCTCTTTTGAGCTTCA
1 GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCA
*
89052180 GTTTAACCCTTATTGGGTTTCCGTTCAGCTCTTATGAGCTTCT
1 GTTTAACCCTTA-TGGGTTTCCGTTCAGCTCTTATGAGCTTCA
* * * *
89052223 GTTAAACCCTTATGGGTTTCCGTTTAGCACTTATGTGCTTC
1 GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTC
89052264 TGTGCAGTCT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
42 37 0.49
43 39 0.51
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (42 bp):
GTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCA
Found at i:89052255 original size:21 final size:21
Alignment explanation
Indices: 89052144--89052257 Score: 75
Period size: 21 Copynumber: 5.4 Consensus size: 21
89052134 TTCTGTTTAA
*
89052144 CCCTAATGGGTTTCCGTTCAG
1 CCCTTATGGGTTTCCGTTCAG
* * * * * * *
89052165 CTCTTTTGAGCTTCAGTTTAA
1 CCCTTATGGGTTTCCGTTCAG
89052186 CCCTTATTGGGTTTCCGTTCAG
1 CCCTTA-TGGGTTTCCGTTCAG
* * * * * *
89052208 CTCTTATGAGCTTCTGTTAAA
1 CCCTTATGGGTTTCCGTTCAG
*
89052229 CCCTTATGGGTTTCCGTTTAG
1 CCCTTATGGGTTTCCGTTCAG
*
89052250 CACTTATG
1 CCCTTATG
89052258 TGCTTCTGTG
Statistics
Matches: 64, Mismatches: 28, Indels: 2
0.68 0.30 0.02
Matches are distributed among these distances:
21 49 0.77
22 15 0.23
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (21 bp):
CCCTTATGGGTTTCCGTTCAG
Found at i:89052264 original size:42 final size:42
Alignment explanation
Indices: 89052134--89052266 Score: 194
Period size: 42 Copynumber: 3.1 Consensus size: 42
89052124 TCATAGGAGT
* *
89052134 TTCTGTTTAACCCTAATGGGTTTCCGTTCAGCTCTTTTGAGC
1 TTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGC
*
89052176 TTCAGTTTAACCCTTATTGGGTTTCCGTTCAGCTCTTATGAGC
1 TTCTGTTTAACCCTTA-TGGGTTTCCGTTCAGCTCTTATGAGC
* * * *
89052219 TTCTGTTAAACCCTTATGGGTTTCCGTTTAGCACTTATGTGC
1 TTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGC
89052261 TTCTGT
1 TTCTGT
89052267 GCAGTCTTCA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 43 0.52
43 39 0.48
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (42 bp):
TTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTATGAGC
Found at i:89054469 original size:19 final size:20
Alignment explanation
Indices: 89054436--89054479 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
89054426 TGGTAATTTG
* *
89054436 AATTTTTTTAAAATATAATAT
1 AATTTTTTT-AAATAAAATAA
89054457 AATTTTTTT-AATAAAATAA
1 AATTTTTTTAAATAAAATAA
89054476 AATT
1 AATT
89054480 AACTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTTTTTAAATAAAATAA
Found at i:89063901 original size:40 final size:40
Alignment explanation
Indices: 89063857--89063954 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
89063847 TTACAGTACC
*
89063857 ACTTGGTGTGTAGGGTTGGATGAGTCAATTTTATCCCCAT
1 ACTTGGTGTGTAGGGTTGGATGAGTCAACTTTATCCCCAT
* * *
89063897 ACTTGGTGTGTAGGGCTGGATGGGTCGACTTTATCCCCAT
1 ACTTGGTGTGTAGGGTTGGATGAGTCAACTTTATCCCCAT
89063937 A--TGGTGTGTTA-GGTTGGA
1 ACTTGGTGTG-TAGGGTTGGA
89063955 CGGAGATGGA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 13 0.25
39 2 0.04
40 37 0.71
ACGTcount: A:0.17, C:0.14, G:0.33, T:0.36
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGTTGGATGAGTCAACTTTATCCCCAT
Found at i:89075601 original size:2 final size:2
Alignment explanation
Indices: 89075594--89075621 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
89075584 AACAATAACA
89075594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89075622 TAGCTATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89076101 original size:21 final size:21
Alignment explanation
Indices: 89076076--89076128 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
89076066 CAACACATAA
89076076 GTGCCTGAAATGACACACGAG
1 GTGCCTGAAATGACACACGAG
* * *
89076097 GTGCCTGATACGACACATGAG
1 GTGCCTGAAATGACACACGAG
89076118 GTGCCTGAAAT
1 GTGCCTGAAAT
89076129 ACGACACATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (21 bp):
GTGCCTGAAATGACACACGAG
Found at i:89076134 original size:23 final size:23
Alignment explanation
Indices: 89076068--89076167 Score: 111
Period size: 23 Copynumber: 4.6 Consensus size: 23
89076058 TCAGTGTGCA
89076068 ACACAT-AAGTGCCTGAAAT--G
1 ACACATGAAGTGCCTGAAATACG
* *
89076088 ACACACGAGGTGCCTG--ATACG
1 ACACATGAAGTGCCTGAAATACG
*
89076109 ACACATGAGGTGCCTGAAATACG
1 ACACATGAAGTGCCTGAAATACG
* *
89076132 ACACATAAAGTGCCTGATATACG
1 ACACATGAAGTGCCTGAAATACG
*
89076155 ACACATAAAGTGC
1 ACACATGAAGTGC
89076168 TTGATCGGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.03
20 5 0.07
21 24 0.35
23 38 0.55
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (23 bp):
ACACATGAAGTGCCTGAAATACG
Found at i:89077054 original size:14 final size:15
Alignment explanation
Indices: 89077021--89077053 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
89077011 TTGCGAATGG
89077021 CTTTTGCTATTCTTT
1 CTTTTGCTATTCTTT
89077036 CTTTTGCT-TTCTTT
1 CTTTTGCTATTCTTT
89077050 -TTTT
1 CTTTT
89077054 TATTTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 6 0.33
15 8 0.44
ACGTcount: A:0.03, C:0.18, G:0.06, T:0.73
Consensus pattern (15 bp):
CTTTTGCTATTCTTT
Found at i:89077113 original size:12 final size:12
Alignment explanation
Indices: 89077098--89077125 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
89077088 GTTAATAATG
89077098 ATAATAATTATA
1 ATAATAATTATA
89077110 ATAATAATTATA
1 ATAATAATTATA
89077122 ATAA
1 ATAA
89077126 ATATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAATTATA
Found at i:89084040 original size:32 final size:32
Alignment explanation
Indices: 89083997--89084057 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
89083987 AAATGAAGAT
* *
89083997 TAACTCTCTTTTTTATGTTTACGTTAAACTAA
1 TAACTCCCTTTTTTATATTTACGTTAAACTAA
*
89084029 TAACTCCCTTTTTTATATTTATGTTAAAC
1 TAACTCCCTTTTTTATATTTACGTTAAAC
89084058 CAATCACTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (32 bp):
TAACTCCCTTTTTTATATTTACGTTAAACTAA
Found at i:89084681 original size:30 final size:30
Alignment explanation
Indices: 89084647--89084709 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
89084637 ACTTATTTTA
89084647 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
89084677 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
89084707 TTG
1 TTG
89084710 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:89084847 original size:11 final size:11
Alignment explanation
Indices: 89084831--89084861 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
89084821 TATATATATT
89084831 TAAAAATTATA
1 TAAAAATTATA
*
89084842 TAAAAATAATA
1 TAAAAATTATA
89084853 TAAAAATTA
1 TAAAAATTA
89084862 ATATGGGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:89084858 original size:12 final size:11
Alignment explanation
Indices: 89084831--89084865 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
89084821 TATATATATT
*
89084831 TAAAAATTATA
1 TAAAAATAATA
89084842 TAAAAATAATA
1 TAAAAATAATA
89084853 TAAAAATTAATA
1 TAAAAA-TAATA
89084865 T
1 T
89084866 GGGAGGGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:89092277 original size:5 final size:5
Alignment explanation
Indices: 89092257--89092312 Score: 64
Period size: 5 Copynumber: 11.6 Consensus size: 5
89092247 AAGTATTTGC
* *
89092257 TTATA TTATAA GTATA TTATA TTATA TTATA TTATA -T-TA TTATA ATATA
1 TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
89092306 TTA-A TTA
1 TTATA TTA
89092313 AATAAAGGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
3 2 0.05
4 6 0.14
5 32 0.73
6 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
TTATA
Found at i:89092299 original size:13 final size:13
Alignment explanation
Indices: 89092257--89092308 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
89092247 AAGTATTTGC
89092257 TTATATTATA--A
1 TTATATTATATTA
*
89092268 GTATATTATATTATA
1 TTATATTATA-T-TA
89092283 TTATATTATATTA
1 TTATATTATATTA
*
89092296 TTATAATATATTA
1 TTATATTATATTA
89092309 ATTAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 9 0.26
13 14 0.41
14 1 0.03
15 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
TTATATTATATTA
Found at i:89092316 original size:13 final size:14
Alignment explanation
Indices: 89092269--89092316 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
89092259 ATATTATAAG
*
89092269 TATATTATATTATAT
1 TATAATATATTA-AT
*
89092284 TATATTATATT-AT
1 TATAATATATTAAT
89092297 TATAATATATTAAT
1 TATAATATATTAAT
89092311 TA-AATA
1 TATAATA
89092317 AAGGATTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 16 0.52
14 4 0.13
15 11 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATAATATATTAAT
Found at i:89093619 original size:3 final size:3
Alignment explanation
Indices: 89093595--89093665 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
89093585 AATATCCTTG
* * * *
89093595 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
89093642 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
89093666 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:89093662 original size:23 final size:22
Alignment explanation
Indices: 89093607--89093668 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
89093597 ATTTTTATAT
*
89093607 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
89093628 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
89093650 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
89093669 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:89093675 original size:23 final size:23
Alignment explanation
Indices: 89093602--89093676 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
89093592 TTGTTATTTT
* *
89093602 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
89093625 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
89093650 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
89093673 TATA
1 TATA
89093677 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:89095085 original size:19 final size:20
Alignment explanation
Indices: 89095049--89095086 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
89095039 CACGAATAGC
*
89095049 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAAAAAGGAAAA
89095069 AGGGAAA-AAAAAAGGAAA
1 AGGGAAAGAAAAAAGGAAA
89095087 TTTAGGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
AGGGAAAGAAAAAAGGAAAA
Found at i:89105733 original size:26 final size:25
Alignment explanation
Indices: 89105704--89105756 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
89105694 GATGGAATAC
* *
89105704 AAATTCAGGGACCAACTTAATAAAAA
1 AAATT-AGAGACCAACTAAATAAAAA
* *
89105730 AAATTAGAGATCAACTAAATACAAA
1 AAATTAGAGACCAACTAAATAAAAA
89105755 AA
1 AA
89105757 GATAAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.19
Consensus pattern (25 bp):
AAATTAGAGACCAACTAAATAAAAA
Found at i:89113340 original size:37 final size:35
Alignment explanation
Indices: 89113290--89113398 Score: 89
Period size: 37 Copynumber: 3.0 Consensus size: 35
89113280 ATTCCAAAAA
*
89113290 AATATTATTTTAATAGT-TTAATATTAAATTTAATGT
1 AATATTATCTTAATAGTATT-ATATT-AATTTAATGT
* *
89113326 AATACTTATCTTAATAGTATTTTATTAATTTAATATT
1 AATA-TTATCTTAATAGTATTATATTAATTTAAT-GT
* *
89113363 AAAATGATTATCTTAATATTA-AAT-TTAATTTAATGT
1 --AAT-ATTATCTTAATAGTATTATATTAATTTAATGT
89113399 TTATCTTATA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
36 13 0.22
37 27 0.45
38 3 0.05
39 16 0.27
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (35 bp):
AATATTATCTTAATAGTATTATATTAATTTAATGT
Found at i:89113463 original size:20 final size:19
Alignment explanation
Indices: 89113438--89113478 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
89113428 TAATAAGATT
89113438 TAATATTAAATTTAATCTAA
1 TAATATTAAA-TTAATCTAA
* *
89113458 TAATATTATATTAATTTAA
1 TAATATTAAATTAATCTAA
89113477 TA
1 TA
89113479 TTAAAGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATATTAAATTAATCTAA
Found at i:89118664 original size:17 final size:18
Alignment explanation
Indices: 89118633--89118666 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
89118623 TTAGATTTTA
*
89118633 TTATATTTATGTTTTATC
1 TTATATTTATATTTTATC
89118651 TTAT-TTTATATTTTAT
1 TTATATTTATATTTTAT
89118667 AATTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATATTTATATTTTATC
Found at i:89119557 original size:214 final size:208
Alignment explanation
Indices: 89119183--89119601 Score: 664
Period size: 214 Copynumber: 2.0 Consensus size: 208
89119173 ATTGTTATTA
89119183 ATGTTTTGTGTTAAATAATATATGCAAAACAATATATTATATGATTGTTGTACATATATATATTA
1 ATGTTTTGTGTTAAATAATATATGCAAAACAATATATTATATGATTGTTGTACATATATATATTA
89119248 TGCATGAATAATGTTTGCAACTACCAAGGTTTAAAGGGTAAATTTGATAATTAAAAAATTCAATT
66 TGCATGAATAATGTTTGCAACTACCAAGGTTTAAAGGGTAAATTTG--AATTAAAAAATTCAATT
* ** *
89119313 TTAAAAAATATTTAAGGTTTTAGGTTTTTTTTCCATATTTAGGGAAATAGGCCGCTTTTGGAGGG
129 TTAAAAAATATTTAAGGTTTTAGGTTTTTTTTCCATATTTAAGGAAATAGGCCAATTTTGGAGAG
89119378 AGAAACAGAAAACGC
194 AGAAACAGAAAACGC
89119393 ATGTTTTGTGTTATTTATATAATATATGCAAAACAATATATTATATGATTGTTGTACATATATAT
1 ATGTTTTGTGTTA---A-ATAATATATGCAAAACAATATATTATATGATTGTTGTACATATATAT
* * *
89119458 ATTATGCATGAATAATGTTTGCAAGTACCAGGGTTTAAAGGGTAAATTTG-A-T-AAAAATGTCG
62 ATTATGCATGAATAATGTTTGCAACTACCAAGGTTTAAAGGGTAAATTTGAATTAAAAAAT-TCA
89119520 ATTTTAAAAAATATTTAAGGTTTTAGGTTATTTTTTTTCCATATTTAAGGAAATAGGCCAATTTT
126 ATTTTAAAAAATATTTAAGGTTTTAGG---TTTTTTTTCCATATTTAAGGAAATAGGCCAATTTT
89119585 GGAGAGAGAAACAGAAA
188 GGAGAGAGAAACAGAAA
89119602 GCGTTTTCTG
Statistics
Matches: 194, Mismatches: 7, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
209 6 0.03
210 43 0.22
211 1 0.01
213 49 0.25
214 95 0.49
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (208 bp):
ATGTTTTGTGTTAAATAATATATGCAAAACAATATATTATATGATTGTTGTACATATATATATTA
TGCATGAATAATGTTTGCAACTACCAAGGTTTAAAGGGTAAATTTGAATTAAAAAATTCAATTTT
AAAAAATATTTAAGGTTTTAGGTTTTTTTTCCATATTTAAGGAAATAGGCCAATTTTGGAGAGAG
AAACAGAAAACGC
Found at i:89119931 original size:49 final size:49
Alignment explanation
Indices: 89119840--89119945 Score: 140
Period size: 49 Copynumber: 2.2 Consensus size: 49
89119830 TTCACTGTGA
* * * ** *
89119840 TTATACGGTCATGGGTTGAAGTATAACTAGGGCTCCTAGTTGATAGTAG
1 TTATGCGGCCATGAGTTGAAGTATAACTAGGGAGCCTAGTTGACAGTAG
* *
89119889 TTATGCGGCCATGAGTTGGAGTATAACTCGGGAGCCTAGTTGACAGTAG
1 TTATGCGGCCATGAGTTGAAGTATAACTAGGGAGCCTAGTTGACAGTAG
89119938 TTATGCGG
1 TTATGCGG
89119946 TCACGGTTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (49 bp):
TTATGCGGCCATGAGTTGAAGTATAACTAGGGAGCCTAGTTGACAGTAG
Found at i:89120569 original size:49 final size:49
Alignment explanation
Indices: 89120473--89120614 Score: 160
Period size: 49 Copynumber: 2.9 Consensus size: 49
89120463 ATGGTATTAA
* * * * *
89120473 ACTTGAACCCATAACTGTATAACCACCGTCAACTAGGGA-CCCAAGTTAT
1 ACTTCAACCCATGACCGCATAACCACCGTCAACT-GGAAGCCCAAGTTAT
** *
89120522 ACTTCAACCTGTGACCGCATAACCACCGTCAACTGGAAGCCCTAGTTAT
1 ACTTCAACCCATGACCGCATAACCACCGTCAACTGGAAGCCCAAGTTAT
* * * *
89120571 ACTTCAACCCATGATCGTATAACAATCGTCAACTGGAAGCCCAA
1 ACTTCAACCCATGACCGCATAACCACCGTCAACTGGAAGCCCAA
89120615 ATAGCAATGC
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 3 0.04
49 74 0.96
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (49 bp):
ACTTCAACCCATGACCGCATAACCACCGTCAACTGGAAGCCCAAGTTAT
Found at i:89124066 original size:25 final size:25
Alignment explanation
Indices: 89124028--89124095 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
89124018 TAAAAAAAAA
*
89124028 AATCTC-T-AGAAATTTT-TTGAAAT
1 AATCTCTTCAGAAATTTTCTAG-AAT
89124051 AATCTCTTCAGAAATTTTCTAGAAT
1 AATCTCTTCAGAAATTTTCTAGAAT
*
89124076 AATCCCTTCAGAAATTTTCT
1 AATCTCTTCAGAAATTTTCT
89124096 CTCTACAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.15
24 1 0.03
25 31 0.77
26 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.41
Consensus pattern (25 bp):
AATCTCTTCAGAAATTTTCTAGAAT
Found at i:89124274 original size:62 final size:62
Alignment explanation
Indices: 89124197--89124331 Score: 189
Period size: 62 Copynumber: 2.2 Consensus size: 62
89124187 ACTTAATCAC
** * *
89124197 TTTAATATTAAATCTTATTAAAATAATAGAATGTTTATCTACAAAATAAAGATTAAATTTAA
1 TTTAATATTAAATCTTATTAAAATAATAGAATAATTATCTACAAAATAAACATTAAATTAAA
* * * * *
89124259 TTTAATATTATATCTTATTAAAATAATAGATTAATTATTTACAAGATGAACATTAAATTAAA
1 TTTAATATTAAATCTTATTAAAATAATAGAATAATTATCTACAAAATAAACATTAAATTAAA
89124321 TTTAATATTAA
1 TTTAATATTAA
89124332 GATAATCAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (62 bp):
TTTAATATTAAATCTTATTAAAATAATAGAATAATTATCTACAAAATAAACATTAAATTAAA
Found at i:89124859 original size:9 final size:9
Alignment explanation
Indices: 89124839--89124878 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
89124829 AAAATATCAT
89124839 ATTAATTTTA
1 ATTAA-TTTA
*
89124849 ATTGATTTA
1 ATTAATTTA
89124858 ATTAATTTA
1 ATTAATTTA
89124867 ATTAATTTA
1 ATTAATTTA
89124876 ATT
1 ATT
89124879 TTACTTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 24 0.86
10 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:89126059 original size:15 final size:15
Alignment explanation
Indices: 89126035--89126066 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
89126025 TATGCATGCA
*
89126035 AAATATAAAAGACAT
1 AAATACAAAAGACAT
89126050 AAATACAAAAGACAT
1 AAATACAAAAGACAT
89126065 AA
1 AA
89126067 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:89128771 original size:31 final size:33
Alignment explanation
Indices: 89128704--89128764 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
89128694 TTGACTCAAA
89128704 TATATCATGTTATAAAAATATTATTATATTAAT
1 TATATCATGTTATAAAAATATTATTATATTAAT
*
89128737 TATAT-ATGTTA-AATAATAATTA-TATATT
1 TATATCATGTTATAAAAAT-ATTATTATATT
89128765 TTTTATACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 11 0.42
32 10 0.38
33 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (33 bp):
TATATCATGTTATAAAAATATTATTATATTAAT
Found at i:89138904 original size:10 final size:10
Alignment explanation
Indices: 89138891--89138915 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
89138881 GTTTTTTTAA
89138891 TTTTTTATTT
1 TTTTTTATTT
89138901 TTTTTTATTT
1 TTTTTTATTT
89138911 TTTTT
1 TTTTT
89138916 GCAGTTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:89151821 original size:4 final size:4
Alignment explanation
Indices: 89151812--89151844 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
89151802 TTTGAGTTCA
*
89151812 ATAC ATAC ATAC ATAC ACAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
89151845 CGCTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAC
Found at i:89151835 original size:16 final size:16
Alignment explanation
Indices: 89151814--89151845 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
89151804 TGAGTTCAAT
89151814 ACATACATACATACAC
1 ACATACATACATACAC
89151830 ACATACATACATACAC
1 ACATACATACATACAC
89151846 GCTTTGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
ACATACATACATACAC
Found at i:89153376 original size:204 final size:204
Alignment explanation
Indices: 89153026--89153433 Score: 780
Period size: 204 Copynumber: 2.0 Consensus size: 204
89153016 CACAAGAAAG
89153026 TAGCACACACAAGGTGTTTAAGTAAATAGTCTCAAATATATTTAATTACTATGAATAAAATATAA
1 TAGCACACACAAGGTGTTTAAGTAAATAGTCTCAAATATATTTAATTACTATGAATAAAATATAA
*
89153091 GGGATGATTACAAAATGAAGGGAGAGGGTTCTATTTATAGTTAAACTCCCTCAGATCCAATTGTA
66 GGGATGATTACAAAATGAAGGGAGAGGGTTCTATTTATAGTTAAACTCCCTCAGATCCAATGGTA
89153156 TAGATGAAATCACAATAACAGTTGAGATTAATGCCTATCTACAAAACTAGAGTCCTAAGGGATTT
131 TAGATGAAATCACAATAACAGTTGAGATTAATGCCTATCTACAAAACTAGAGTCCTAAGGGATTT
89153221 AAAATCTAT
196 AAAATCTAT
*
89153230 TAGCACACACAAGGTGTTTGAGTAAATAGTCTCAAATATATTTAATTACTATGAATAAAATATAA
1 TAGCACACACAAGGTGTTTAAGTAAATAGTCTCAAATATATTTAATTACTATGAATAAAATATAA
89153295 GGGATGATTACAAAATGAAGGGAGAGGGTTCTATTTATAGTTAAACTCCCTCAGATCCAATGGTA
66 GGGATGATTACAAAATGAAGGGAGAGGGTTCTATTTATAGTTAAACTCCCTCAGATCCAATGGTA
*
89153360 TAGATGAAATCACAATAACAGTTGAGATTAATGCCTATCTACATAACTAGAGTCCTAAGGGATTT
131 TAGATGAAATCACAATAACAGTTGAGATTAATGCCTATCTACAAAACTAGAGTCCTAAGGGATTT
*
89153425 AAAGTCTAT
196 AAAATCTAT
89153434 ATAATTTTAT
Statistics
Matches: 200, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
204 200 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (204 bp):
TAGCACACACAAGGTGTTTAAGTAAATAGTCTCAAATATATTTAATTACTATGAATAAAATATAA
GGGATGATTACAAAATGAAGGGAGAGGGTTCTATTTATAGTTAAACTCCCTCAGATCCAATGGTA
TAGATGAAATCACAATAACAGTTGAGATTAATGCCTATCTACAAAACTAGAGTCCTAAGGGATTT
AAAATCTAT
Found at i:89155012 original size:29 final size:30
Alignment explanation
Indices: 89154978--89155041 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
89154968 TAATAATATT
* * *
89154978 TATTTATTTTAAATAAAAATAAA-TTAATA
1 TATTTATCTCAAATAAAAATAAATTTAAAA
* *
89155007 TATTTATCTCAATTGAAAATAAATTTAAAA
1 TATTTATCTCAAATAAAAATAAATTTAAAA
89155037 TATTT
1 TATTT
89155042 CATATGTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (30 bp):
TATTTATCTCAAATAAAAATAAATTTAAAA
Found at i:89160448 original size:20 final size:20
Alignment explanation
Indices: 89160423--89160463 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
89160413 GATTGTCCTA
89160423 TGTATTTTTCCTTTTTACCT
1 TGTATTTTTCCTTTTTACCT
89160443 TGTATTTTTCCTTTTTACCT
1 TGTATTTTTCCTTTTTACCT
89160463 T
1 T
89160464 TTACTAGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.20, G:0.05, T:0.66
Consensus pattern (20 bp):
TGTATTTTTCCTTTTTACCT
Found at i:89165161 original size:21 final size:19
Alignment explanation
Indices: 89165122--89165161 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
89165112 ATTTACTTTT
*
89165122 AATATAATAATTCAAAATA
1 AATATAATAATTAAAAATA
89165141 AATATAATAATATTAAAAATA
1 AATATAAT-A-ATTAAAAATA
89165162 CATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAATAATTAAAAATA
Found at i:89166357 original size:18 final size:18
Alignment explanation
Indices: 89166321--89166410 Score: 137
Period size: 18 Copynumber: 4.9 Consensus size: 18
89166311 AATCATATCT
*
89166321 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
89166340 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
89166358 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
89166375 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
89166393 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
89166411 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
17 16 0.24
18 34 0.52
19 16 0.24
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:89166418 original size:35 final size:36
Alignment explanation
Indices: 89166321--89166410 Score: 155
Period size: 35 Copynumber: 2.5 Consensus size: 36
89166311 AATCATATCT
89166321 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
89166358 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
89166393 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
89166411 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
35 35 0.69
37 16 0.31
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:89167260 original size:207 final size:207
Alignment explanation
Indices: 89166803--89167516 Score: 1160
Period size: 207 Copynumber: 3.5 Consensus size: 207
89166793 AAATCTGCTT
* * * *
89166803 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
* * * * *
89166868 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATATT
* * * ** * * *
89166933 GGATC-TGCTTCAGTCTAATCATCTAAAGGTTAGATCTGCTATATGTTTGTCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
89166997 GGAGACACCAAA
196 GGAGACGCCAAA
* *
89167009 CTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
89167074 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATATT
89167139 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
89167204 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
89167216 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
*
89167281 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCTTTGTAAGCACAATGATGCCAAACCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATATT
* *
89167346 GGATCTTACTTCAATATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
89167411 GGAGACGCCAAA
196 GGAGACGCCAAA
* * * *
89167423 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
89167488 GTGAAAGCCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
89167517 CTGCTCTCCG
Statistics
Matches: 476, Mismatches: 31, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 124 0.26
207 352 0.74
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATATT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:89167745 original size:43 final size:43
Alignment explanation
Indices: 89167696--89167838 Score: 134
Period size: 43 Copynumber: 3.3 Consensus size: 43
89167686 ATCTGCTCCA
89167696 CTACTGCTTAGGGAGATAAGATCCACAATTTTGACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCCACAATTTTGACCTGTTACC
* * * *
89167739 CTACTGCTTAGGG-GATTAAG-GCGAGTC-GTTGTTGATCTGTT-CC
1 CTACTGCTTAGGGAGA-TAAGATCCA--CAATT-TTGACCTGTTACC
* * *
89167782 GCTACTGCTTAAGGAGATAAGATCTATAATTTT-AGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCCACAATTTTGA-CCTGTTACC
89167826 CTACTGCTTAGGG
1 CTACTGCTTAGGG
89167839 GGTTAAGGCG
Statistics
Matches: 79, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
42 5 0.06
43 40 0.51
44 30 0.38
45 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCCACAATTTTGACCTGTTACC
Found at i:89167813 original size:87 final size:83
Alignment explanation
Indices: 89167635--89167928 Score: 394
Period size: 84 Copynumber: 3.5 Consensus size: 83
89167625 GCTAGATCTG
* * * *
89167635 CTATACTTTAACCTGTTACCCTACTACTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTA
1 CTATAATTTTACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTA
89167699 CTGCTTAGGGAGATAAGAT
65 CTGCTTAGGGAGATAAGAT
* * * * *
89167718 CCACAATTTTGACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTTGTTGATCTGTTCCG
1 CTATAATTTT-ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC--T-TCGATCTGCTCCA
*
89167783 CTACTGCTTAAGGAGATAAGAT
62 CTACTGCTTAGGGAGATAAGAT
*
89167805 CTATAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGATCTGCTCCACTA
1 CTATAATTTTA-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTA
89167870 CTGCTTAGGGAGATAAGAT
65 CTGCTTAGGGAGATAAGAT
* *
89167889 CTGTAAATTTAACCTGTTA-CCTACTGCTTAGGGGATTAAG
1 CTAT-AATTTTACCTGTTACCCTACTGCTTAGGGGATTAAG
89167929 ATGCCGAATT
Statistics
Matches: 184, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
83 27 0.15
84 74 0.40
85 7 0.04
86 2 0.01
87 74 0.40
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (83 bp):
CTATAATTTTACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTAC
TGCTTAGGGAGATAAGAT
Found at i:89168873 original size:1 final size:1
Alignment explanation
Indices: 89168863--89168930 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
89168853 GGCCTCTCAA
* * * * * * * * *
89168863 TTTTTCTTTTTTTTCTTTTTTTTCTCTTTTTATTTTATTTTATTTTTTTTCTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
89168928 TTT
1 TTT
89168931 GAAATAGAAG
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:89168877 original size:9 final size:9
Alignment explanation
Indices: 89168863--89168929 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
89168853 GGCCTCTCAA
89168863 TTTTTCTTT
1 TTTTTCTTT
89168872 TTTTTCTTT
1 TTTTTCTTT
89168881 TTTTTCTCTT
1 TTTTTCT-TT
*
89168891 TTTAT-TTT
1 TTTTTCTTT
* *
89168899 ATTTTATTT
1 TTTTTCTTT
89168908 TTTTTC-TT
1 TTTTTCTTT
89168916 TTTTTCTTT
1 TTTTTCTTT
89168925 TTTTT
1 TTTTT
89168930 TGAAATAGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
8 13 0.26
9 31 0.62
10 6 0.12
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:89171454 original size:12 final size:12
Alignment explanation
Indices: 89171437--89171462 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
89171427 AGCCGTGACC
89171437 TTCTTTCTCTTT
1 TTCTTTCTCTTT
89171449 TTCTTTCTCTTT
1 TTCTTTCTCTTT
89171461 TT
1 TT
89171463 AACCTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCTTTCTCTTT
Found at i:89174706 original size:17 final size:18
Alignment explanation
Indices: 89174653--89174778 Score: 170
Period size: 19 Copynumber: 6.9 Consensus size: 18
89174643 AATCATATCT
89174653 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
89174672 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
89174690 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
89174707 TCTAAGATTG-TAATCATA
1 TCTAAGATTGAT-ATCATA
89174725 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
*
89174742 TCTAAGATTGCATATCACA
1 TCTAAGATTG-ATATCATA
89174761 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
89174779 TGAAGATTAT
Statistics
Matches: 100, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
17 33 0.33
18 33 0.33
19 34 0.34
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:89174711 original size:35 final size:35
Alignment explanation
Indices: 89174653--89174770 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
89174643 AATCATATCT
89174653 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
89174690 TCTAAGATTGTATCATATCTAAGATTGTAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
89174725 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
89174761 TCTAAGATTG
1 TCTAAGATTG
89174771 CATATCATTG
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 52 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:89174786 original size:17 final size:18
Alignment explanation
Indices: 89174653--89174775 Score: 87
Period size: 17 Copynumber: 6.8 Consensus size: 18
89174643 AATCATATCT
* *
89174653 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
89174672 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
89174690 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
* *
89174707 TCTAAGATTGTA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
89174725 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
89174742 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
89174761 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
89174776 CATTGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 32 0.33
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:89175323 original size:11 final size:11
Alignment explanation
Indices: 89175304--89175351 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
89175294 ATATTTCTAC
* *
89175304 TATTTTTTTGT
1 TATTGTTTTAT
*
89175315 TATTGTTTTAA
1 TATTGTTTTAT
* *
89175326 TATTGTATAAT
1 TATTGTTTTAT
89175337 TATTGTTTTAT
1 TATTGTTTTAT
89175348 TATT
1 TATT
89175352 AATTCTATTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
TATTGTTTTAT
Found at i:89177365 original size:32 final size:30
Alignment explanation
Indices: 89177296--89177365 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 30
89177286 TATAGTTTAG
89177296 GATAAAAAATTATTAAAATTATATATTAAT
1 GATAAAAAATTATTAAAATTATATATTAAT
* *
89177326 GATATAAAAAATATTAAAATTTTATTATATAATT
1 GATA-AAAAATTATTAAAATTATA-TAT-TAA-T
89177360 GATAAA
1 GATAAA
89177366 GGACTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 4 0.12
31 17 0.50
32 3 0.09
33 5 0.15
34 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (30 bp):
GATAAAAAATTATTAAAATTATATATTAAT
Found at i:89179080 original size:18 final size:19
Alignment explanation
Indices: 89179046--89179101 Score: 80
Period size: 18 Copynumber: 3.1 Consensus size: 19
89179036 AAAATTTTAA
*
89179046 ATTTTAAAAATAAAAAAAT
1 ATTTTAAAAATATAAAAAT
89179065 ATTTTAAAAAT-TAAAAAT
1 ATTTTAAAAATATAAAAAT
*
89179083 -TATTAAAAATATAAAAAT
1 ATTTTAAAAATATAAAAAT
89179101 A
1 A
89179102 AATATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.27
18 13 0.39
19 11 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTTTAAAAATATAAAAAT
Found at i:89182249 original size:13 final size:13
Alignment explanation
Indices: 89182231--89182258 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
89182221 ATTCAGGGCA
89182231 TAGAGGAAAAAGG
1 TAGAGGAAAAAGG
89182244 TAGAGGAAAAAGG
1 TAGAGGAAAAAGG
89182257 TA
1 TA
89182259 AAGAGTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.36, T:0.11
Consensus pattern (13 bp):
TAGAGGAAAAAGG
Found at i:89184981 original size:17 final size:17
Alignment explanation
Indices: 89184959--89184992 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
89184949 CATTCATGCT
89184959 TGTTTAATGGAGAATTA
1 TGTTTAATGGAGAATTA
89184976 TGTTTAATGGAGAATTA
1 TGTTTAATGGAGAATTA
89184993 ATAATCATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
TGTTTAATGGAGAATTA
Found at i:89189839 original size:17 final size:19
Alignment explanation
Indices: 89189805--89189840 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
89189795 GAATTTAAGG
*
89189805 TTAGTATATATGATTTTTT
1 TTAGCATATATGATTTTTT
89189824 TTAGCATATAT-ATTTTT
1 TTAGCATATATGATTTTT
89189841 GAAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (19 bp):
TTAGCATATATGATTTTTT
Found at i:89193410 original size:70 final size:71
Alignment explanation
Indices: 89193286--89193425 Score: 192
Period size: 70 Copynumber: 2.0 Consensus size: 71
89193276 ACTAATTTTG
* *
89193286 TAATTTTGTAATCAGAAAACTCGATACTATATATATATATTAATTAAAAGAGAAATGAATGTATG
1 TAATTTTGTAATCAGAAAACTCGATAC-ATAGATATATATTAATTAAAAGAGAAAGGAATGTATG
89193351 AAACTGT
65 AAACTGT
* * * * * *
89193358 TAATTTTGTAATTAGAGAATTCGATA-GTAGATATCTATTAATTAAAAGAGAAAGGATTGTATGA
1 TAATTTTGTAATCAGAAAACTCGATACATAGATATATATTAATTAAAAGAGAAAGGAATGTATGA
89193422 AACT
66 AACT
89193426 ATGATTCCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 37 0.62
72 23 0.38
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (71 bp):
TAATTTTGTAATCAGAAAACTCGATACATAGATATATATTAATTAAAAGAGAAAGGAATGTATGA
AACTGT
Found at i:89202209 original size:15 final size:15
Alignment explanation
Indices: 89202174--89202216 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
89202164 TCTATATATC
*
89202174 ATTATATTAAATTATT
1 ATTATATT-ATTTATT
* *
89202190 TTTATCTTATTTATT
1 ATTATATTATTTATT
89202205 ATTATATTATTT
1 ATTATATTATTT
89202217 TTAAAATATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTATATTATTTATT
Found at i:89202226 original size:26 final size:26
Alignment explanation
Indices: 89202178--89202227 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
89202168 TATATCATTA
***
89202178 TATTAAATTATTTTTATCTTATTTAT
1 TATTAAATTATTTTTAAAATATTTAT
*
89202204 TATTATATTATTTTTAAAATATTT
1 TATTAAATTATTTTTAAAATATTT
89202228 TATATATCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTAAATTATTTTTAAAATATTTAT
Found at i:89203955 original size:7 final size:7
Alignment explanation
Indices: 89203945--89203969 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
89203935 TATAAAAAGG
89203945 AAAAGAA
1 AAAAGAA
89203952 AAAAGAA
1 AAAAGAA
89203959 AAAAGAA
1 AAAAGAA
89203966 AAAA
1 AAAA
89203970 AAGAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:89204579 original size:21 final size:21
Alignment explanation
Indices: 89204536--89204595 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
89204526 ATTTTCATTA
*
89204536 CTTTATTAT-TAT-TATATGT
1 CTTTATTATATATGTATATAT
89204555 -TTTATTATATATGTATATAT
1 CTTTATTATATATGTATATAT
* *
89204575 CTTTAATATATATGTACATAT
1 CTTTATTATATATGTATATAT
89204596 TTATGTAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.23
19 3 0.09
20 6 0.17
21 18 0.51
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
CTTTATTATATATGTATATAT
Done.