Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 207 of 208
Found at i:63431855 original size:15 final size:15
Alignment explanation
Indices: 63431835--63431869 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
63431825 ACCTGACCAG
*
63431835 CAAACCCAAATGAAT
1 CAAACCCAAATGAAC
63431850 CAAACCCAAATGAAC
1 CAAACCCAAATGAAC
63431865 CAAAC
1 CAAAC
63431870 ATAAAGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.54, C:0.31, G:0.06, T:0.09
Consensus pattern (15 bp):
CAAACCCAAATGAAC
Found at i:63433422 original size:8 final size:8
Alignment explanation
Indices: 63433399--63433452 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
63433389 AACTTTACAC
*
63433399 ACACACAC
1 ACACACAT
63433407 ACACACAT
1 ACACACAT
63433415 ACACACAT
1 ACACACAT
*
63433423 ACATACAT
1 ACACACAT
* *
63433431 ACA-TCGT
1 ACACACAT
*
63433438 ACACATAT
1 ACACACAT
63433446 ACACACA
1 ACACACA
63433453 CATGTACGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 5 0.14
8 32 0.86
ACGTcount: A:0.48, C:0.35, G:0.02, T:0.15
Consensus pattern (8 bp):
ACACACAT
Found at i:63436299 original size:6 final size:7
Alignment explanation
Indices: 63436282--63436306 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
63436272 TAGTTACCTT
63436282 TTTTTCC
1 TTTTTCC
63436289 TTTTTCC
1 TTTTTCC
63436296 TTTTTCC
1 TTTTTCC
63436303 TTTT
1 TTTT
63436307 ATTATCTATT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCC
Found at i:63439231 original size:264 final size:263
Alignment explanation
Indices: 63438750--63439252 Score: 801
Period size: 264 Copynumber: 1.9 Consensus size: 263
63438740 GGGAAGAAAT
* * *
63438750 TGTCATATTTCAAATTTTGTGCTTGTTTCAAGCCCAAATAGACCATTATAGTTACTTTTAACATA
1 TGTCAGATTTCAAATATTGTGCTTGTTTCAAGCCCAAATAGACCATCATAGTTACTTTTAACATA
* *
63438815 TGAAAAAATAGATCAATGATCATCCTTCAACATATGACATTAATACTATATGTCCAGAAAGGCCA
66 TGAAAAAATAGATCAAAGATCATCCTTCAACATATGACATTAATACTATATGTCCACAAA-GCCA
*
63438880 CCGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGATACTGGTTTTCTAACATTATGCCCGTCTC
130 CCGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGATACTGGTTTTCTAACATTATGCCCGCCTC
* *
63438945 CACAATTGCAACTTACTGATATGTTCTGTTTTTCTGCCAAAACATATATAATACATAAGTGGAAC
195 CACAATTGCAACTTACTGATATGTTCTATTTTTCTACCAAAACATATATAATACATAAGTGGAAC
63439010 TTAG
260 TTAG
*
63439014 TGTCAGATTTCAAATATTGTGCTTGTTTCAAGTCCAAATAGACCATCATAGTTACTTTTAACATA
1 TGTCAGATTTCAAATATTGTGCTTGTTTCAAGCCCAAATAGACCATCATAGTTACTTTTAACATA
* *
63439079 TGAAAAGATAGATCAAAGATCATCCTTCAACATATGACATTAATACTATATGTCTACAAA-CCAC
66 TGAAAAAATAGATCAAAGATCATCCTTCAACATATGACATTAATACTATATGTCCACAAAGCCAC
* * * ***
63439143 TGAAGCCTTTTAAACCAATGTCTGGTCTTTATGGATTACTGGTTTTCTAACATTAATGTTTGCCT
131 CGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGA-TACTGGTTTTCTAACATT-ATGCCCGCCT
* *
63439208 CCATAATTGCAACTTAGTGATATGTTCTATTTTTCTACCAAAACA
194 CCACAATTGCAACTTACTGATATGTTCTATTTTTCTACCAAAACA
63439253 GGAAATTTAG
Statistics
Matches: 218, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
262 36 0.17
263 18 0.08
264 164 0.75
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (263 bp):
TGTCAGATTTCAAATATTGTGCTTGTTTCAAGCCCAAATAGACCATCATAGTTACTTTTAACATA
TGAAAAAATAGATCAAAGATCATCCTTCAACATATGACATTAATACTATATGTCCACAAAGCCAC
CGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGATACTGGTTTTCTAACATTATGCCCGCCTCC
ACAATTGCAACTTACTGATATGTTCTATTTTTCTACCAAAACATATATAATACATAAGTGGAACT
TAG
Found at i:63441303 original size:2 final size:2
Alignment explanation
Indices: 63441296--63441331 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
63441286 TAAGAATAGA
63441296 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63441332 TCTATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63446322 original size:4 final size:4
Alignment explanation
Indices: 63446313--63446337 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
63446303 ACTCATAAAC
63446313 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
63446338 ATTTTGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:63446485 original size:2 final size:2
Alignment explanation
Indices: 63446476--63446504 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
63446466 AATATATTTT
63446476 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63446505 AAATAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:63447231 original size:30 final size:32
Alignment explanation
Indices: 63447169--63447238 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
63447159 GACCTCCAAA
*
63447169 AAATTTAAGTACCAACTTAAGAAAAAAGTGTC
1 AAATTTAAGTACCAAATTAAGAAAAAAGTGTC
*
63447201 AAATTTAAGTACTAAATTAA-AAAAAA-TGTC
1 AAATTTAAGTACCAAATTAAGAAAAAAGTGTC
63447231 AAATTTAA
1 AAATTTAA
63447239 ATGTCAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 12 0.33
31 6 0.17
32 18 0.50
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (32 bp):
AAATTTAAGTACCAAATTAAGAAAAAAGTGTC
Found at i:63452168 original size:188 final size:190
Alignment explanation
Indices: 63451821--63452194 Score: 576
Period size: 188 Copynumber: 2.0 Consensus size: 190
63451811 TCCCGAACCG
* * **
63451821 TGGAACTGGAATGTGTATTTGTTTCCTCTTTGGTGTTGTGGTGTGGTAATCCGATACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGTTGTGGTGTGGTAATCCGATACTTGATTTT
* *
63451886 ATTCCCTGTGAGGTTAGCTATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCGTGATGGT
66 ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
*
63451951 TAATGTTTGAATGAAAGTTTACTTTATGTTCGTTTTCGAGGTTAGTTAGGTAGTGTATTA
131 TAATGTTTGAATAAAAGTTTACTTTATGTTCGTTTTCGAGGTTAGTTAGGTAGTGTATTA
*
63452011 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTG-T-T-GTGTGGTAATCCGTTACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGTTGTGGTGTGGTAATCCGATACTTGATTTT
* * * *
63452073 ATTCTCTGTGAGGTTAGCCATTGAACTTTTTC-ATAAGTAACATTGCATTGTTTGATGCATGTTG
66 ATTCCCTGTGAGGTTAGCCATTGAAC-TTCTCGA-AAGTAACATTGAATTGTTTGATGCATGATG
* *
63452137 GTTCATGTTTGAATAAAAGTTTACTTTATGTTTGTTTTCGAGGTTAGTTAGGTAGTGT
129 GTTAATGTTTGAATAAAAGTTTACTTTATGTTCGTTTTCGAGGTTAGTTAGGTAGTGT
63452195 CTCATAGTTG
Statistics
Matches: 168, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
187 49 0.29
188 87 0.52
189 1 0.01
190 31 0.18
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.44
Consensus pattern (190 bp):
TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGTTGTGGTGTGGTAATCCGATACTTGATTTT
ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
TAATGTTTGAATAAAAGTTTACTTTATGTTCGTTTTCGAGGTTAGTTAGGTAGTGTATTA
Found at i:63459160 original size:31 final size:31
Alignment explanation
Indices: 63459110--63459185 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
63459100 GATTTAGTCT
*
63459110 TTGTAC-TTT-AATTTGGTCAATTTTAATCC
1 TTGTACTTTTCAAATTGGTCAATTTTAATCC
* *
63459139 TTGTACTTTTCGAATTGGTCAATTTTAGTCC
1 TTGTACTTTTCAAATTGGTCAATTTTAATCC
63459170 TTGTACTTTTCAAATT
1 TTGTACTTTTCAAATT
63459186 CTTTTAGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 6 0.15
30 3 0.07
31 32 0.78
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.51
Consensus pattern (31 bp):
TTGTACTTTTCAAATTGGTCAATTTTAATCC
Found at i:63467295 original size:5 final size:5
Alignment explanation
Indices: 63467285--63467325 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
63467275 AGTTTATAAC
63467285 ATATT ATATT ATATT ATATT ATA-T ATATT -T-TT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
63467326 AATTTATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.06
4 6 0.18
5 25 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:63467318 original size:17 final size:17
Alignment explanation
Indices: 63467285--63467330 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
63467275 AGTTTATAAC
*
63467285 ATATTATAT-TA-TATT
1 ATATTATATATATTTTT
63467300 ATATTATATATATTTTT
1 ATATTATATATATTTTT
63467317 ATATTATATA-ATTT
1 ATATTATATATATTT
63467331 ATAACACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 9 0.32
16 6 0.21
17 13 0.46
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTATATATATTTTT
Found at i:63467341 original size:27 final size:27
Alignment explanation
Indices: 63467288--63467341 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
63467278 TTATAACATA
* * *
63467288 TTATATTATATTATATTATATATATTT
1 TTATATTATATAATATTATACACATTT
63467315 TTATATTATATAAT-TTATAACACATTT
1 TTATATTATATAATATTAT-ACACATTT
63467342 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (27 bp):
TTATATTATATAATATTATACACATTT
Found at i:63467915 original size:36 final size:36
Alignment explanation
Indices: 63467874--63467945 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
63467864 CTTTAGACAA
63467874 AACTCTTTTAATGTTATTTTTTCCATTCACAAAATT
1 AACTCTTTTAATGTTATTTTTTCCATTCACAAAATT
*
63467910 AACTCTTTTAATGTTATTTTTTCGATTCACAAAATT
1 AACTCTTTTAATGTTATTTTTTCCATTCACAAAATT
63467946 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (36 bp):
AACTCTTTTAATGTTATTTTTTCCATTCACAAAATT
Found at i:63472280 original size:8 final size:7
Alignment explanation
Indices: 63472240--63472279 Score: 71
Period size: 7 Copynumber: 5.6 Consensus size: 7
63472230 CATGCTATTT
63472240 TTTTGAA
1 TTTTGAA
63472247 TTTTGAA
1 TTTTGAA
63472254 TTTTGAA
1 TTTTGAA
63472261 TTTTGAA
1 TTTTGAA
63472268 TTTTTGAA
1 -TTTTGAA
63472276 TTTT
1 TTTT
63472280 TATCATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 25 0.78
8 7 0.22
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TTTTGAA
Found at i:63475073 original size:16 final size:16
Alignment explanation
Indices: 63475054--63475088 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
63475044 TGTATCTTTG
*
63475054 ATTGATATAATCTTCA
1 ATTGAAATAATCTTCA
63475070 ATTGAAATAATCTTCA
1 ATTGAAATAATCTTCA
63475086 ATT
1 ATT
63475089 CTGACTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTGAAATAATCTTCA
Found at i:63478666 original size:2 final size:2
Alignment explanation
Indices: 63478659--63478691 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
63478649 CACCCGATTT
63478659 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
63478692 TTGACCAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:63480091 original size:2 final size:2
Alignment explanation
Indices: 63480084--63480120 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
63480074 GTATTTAGTT
63480084 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
63480121 CCCAAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:63481589 original size:27 final size:27
Alignment explanation
Indices: 63481559--63481619 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 27
63481549 ATTCATTTTT
63481559 TATTTTA-AAATAATAAA-TTATATAAAA
1 TATTTTATAAAT--TAAATTTATATAAAA
63481586 TATTTTATAAATTAAATTTATATAAAA
1 TATTTTATAAATTAAATTTATATAAAA
63481613 TAATTTT
1 T-ATTTT
63481620 TTATTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.13
27 18 0.58
28 9 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTTTATAAATTAAATTTATATAAAA
Found at i:63496467 original size:75 final size:75
Alignment explanation
Indices: 63496377--63496515 Score: 269
Period size: 75 Copynumber: 1.9 Consensus size: 75
63496367 TAAAAGAATG
63496377 TAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATCAAAAGAATGTAAAA
1 TAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATCAAAAGAATGTAAAA
63496442 TGTAAATCAT
66 TGTAAATCAT
*
63496452 TAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATTAAAAGAATGTAAA
1 TAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATCAAAAGAATGTAAA
63496516 TCACATCATG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.34
Consensus pattern (75 bp):
TAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATCAAAAGAATGTAAAA
TGTAAATCAT
Found at i:63510435 original size:59 final size:58
Alignment explanation
Indices: 63510368--63510478 Score: 143
Period size: 59 Copynumber: 1.9 Consensus size: 58
63510358 TAAAGGTTTA
63510368 ATTAAAATTTTCAAAACTTGTAGA-GGGCTTAATAAGAAATTTCAAAAAAATTGGGGGTG
1 ATTAAAATTTT-AAAACTTGTAGAGGGGCTTAATAAGAAA-TTCAAAAAAATTGGGGGTG
** * * * *
63510427 ATTAAAATTTTTTAATTTTTTGAGGGGCTTAATAAGAAATTCTAAAAAATTG
1 ATTAAAATTTTAAAACTTGTAGAGGGGCTTAATAAGAAATTCAAAAAAATTG
63510479 AAAGGCCTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 19 0.42
59 26 0.58
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.36
Consensus pattern (58 bp):
ATTAAAATTTTAAAACTTGTAGAGGGGCTTAATAAGAAATTCAAAAAAATTGGGGGTG
Found at i:63510676 original size:13 final size:13
Alignment explanation
Indices: 63510658--63510684 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63510648 ATATGGTGAG
63510658 TCAAAAAAGACGT
1 TCAAAAAAGACGT
63510671 TCAAAAAAGACGT
1 TCAAAAAAGACGT
63510684 T
1 T
63510685 TATAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (13 bp):
TCAAAAAAGACGT
Found at i:63513387 original size:19 final size:20
Alignment explanation
Indices: 63513355--63513406 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
63513345 TATTGATATT
* *
63513355 AAACACAT-TAAAATGATCG
1 AAACACATCGAAATTGATCG
63513374 AAACACATCGAAATTTTGATCG
1 AAACACATCGAAA--TTGATCG
*
63513396 AAACACTTCGA
1 AAACACATCGA
63513407 TATTAACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.30
20 3 0.11
22 16 0.59
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (20 bp):
AAACACATCGAAATTGATCG
Found at i:63515078 original size:17 final size:20
Alignment explanation
Indices: 63515050--63515093 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
63515040 GCAAATAATT
*
63515050 TAAAAATAATAAATA-TTCA
1 TAAAAATAATAAAAAGTTCA
63515069 -AAAAAT-ATAAAAAGTTCA
1 TAAAAATAATAAAAAGTTCA
63515087 TAAAAAT
1 TAAAAAT
63515094 TTCAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.27
18 10 0.45
19 6 0.27
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAATAATAAAAAGTTCA
Found at i:63518405 original size:16 final size:16
Alignment explanation
Indices: 63518384--63518417 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
63518374 ATTCATATAT
63518384 ATGTATGTATGTATGC
1 ATGTATGTATGTATGC
*
63518400 ATGTATGTTTGTATGC
1 ATGTATGTATGTATGC
63518416 AT
1 AT
63518418 ACACTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.47
Consensus pattern (16 bp):
ATGTATGTATGTATGC
Found at i:63524289 original size:59 final size:60
Alignment explanation
Indices: 63524152--63524297 Score: 208
Period size: 60 Copynumber: 2.5 Consensus size: 60
63524142 GTTAGCCGTG
* * * *
63524152 TGACCAAAAAAGACAGAATTA--AATAGTTGAGTGATTATTTTGTAATTTTTCATAGTTTGA
1 TGACCAAAAAAGA-A-ATTTACTAATAGTTGAATGATCATTTTGTAATTTTTCATAGTTGGA
*
63524212 TGACCAAAAAAGAAATTTACTAATAGTTGAATGATCATTTTGTATTTTTTCATAGTTGGA
1 TGACCAAAAAAGAAATTTACTAATAGTTGAATGATCATTTTGTAATTTTTCATAGTTGGA
63524272 TGACC-AAAAAGAAATTTACTAATAGT
1 TGACCAAAAAAGAAATTTACTAATAGT
63524298 AGGATTACTA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
58 4 0.05
59 22 0.28
60 53 0.67
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (60 bp):
TGACCAAAAAAGAAATTTACTAATAGTTGAATGATCATTTTGTAATTTTTCATAGTTGGA
Found at i:63524532 original size:22 final size:20
Alignment explanation
Indices: 63524507--63524555 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
63524497 TCACCACTTG
63524507 AATTTTTTTAAAATATATTTA
1 AATTTTTTTAAAATAT-TTTA
* * *
63524528 TAATTTCTTTATAATCTTTTA
1 -AATTTTTTTAAAATATTTTA
63524549 AATTTTT
1 AATTTTT
63524556 AGGTGATAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 4 0.17
22 13 0.57
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTTTTTTAAAATATTTTA
Found at i:63526556 original size:2 final size:2
Alignment explanation
Indices: 63526549--63526587 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
63526539 CATGTATTTC
63526549 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
63526588 CAAGTAACGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:63528697 original size:23 final size:23
Alignment explanation
Indices: 63528661--63528706 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
63528651 ATTTTAAATT
* *
63528661 ATTTTAAATTAAATTTAATAAAA
1 ATTTTAAATAAAATTCAATAAAA
*
63528684 ATTTTAAGTAAAATTCAATAAAA
1 ATTTTAAATAAAATTCAATAAAA
63528707 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTTAAATAAAATTCAATAAAA
Found at i:63528970 original size:17 final size:17
Alignment explanation
Indices: 63528948--63528980 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63528938 ATATTTAATA
63528948 TATATTTAATTAAAAAG
1 TATATTTAATTAAAAAG
*
63528965 TATATTTGATTAAAAA
1 TATATTTAATTAAAAA
63528981 TAAAAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
TATATTTAATTAAAAAG
Found at i:63529576 original size:22 final size:21
Alignment explanation
Indices: 63529535--63529577 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
63529525 TAAAAGGATC
63529535 TAAAAAAATATTTAGTAAAAAA
1 TAAAAAAATATTTAG-AAAAAA
63529557 TAAAAAAAGTAATTTA-AAAAA
1 TAAAAAAA-T-ATTTAGAAAAA
63529578 TTATTTCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.68
23 1 0.05
24 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
TAAAAAAATATTTAGAAAAAA
Found at i:63535641 original size:49 final size:49
Alignment explanation
Indices: 63535588--63535695 Score: 207
Period size: 49 Copynumber: 2.2 Consensus size: 49
63535578 CAGAGTGGAA
*
63535588 CTGTTCTTCAGTTCTCAGGATTTTTTCACGGACATTGGACATTGTTTAT
1 CTGTTCTTCAGTTCTCAGGATTTTTTCACAGACATTGGACATTGTTTAT
63535637 CTGTTCTTCAGTTCTCAGGATTTTTTCACAGACATTGGACATTGTTTAT
1 CTGTTCTTCAGTTCTCAGGATTTTTTCACAGACATTGGACATTGTTTAT
63535686 CTGTTCTTCA
1 CTGTTCTTCA
63535696 AAGGCATAGG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (49 bp):
CTGTTCTTCAGTTCTCAGGATTTTTTCACAGACATTGGACATTGTTTAT
Found at i:63539526 original size:6 final size:6
Alignment explanation
Indices: 63539515--63539556 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
63539505 AAAATGAAAC
* * *
63539515 AAATTA AAATTA AGATTA AGATTA AAATTA TAATTA AAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
63539557 GACAGCATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (6 bp):
AAATTA
Found at i:63555531 original size:3 final size:3
Alignment explanation
Indices: 63555525--63555551 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
63555515 TCTTAAATAA
63555525 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
63555552 TACATACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:63561542 original size:28 final size:29
Alignment explanation
Indices: 63561504--63561566 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 29
63561494 CGAATATAAT
63561504 AAATATATATTTTTA-ATTTTTAATTTTA
1 AAATATATATTTTTACATTTTTAATTTTA
* *
63561532 AAATATATATTTTTACTTTTTTTATTTTTA
1 AAATATATATTTTTAC-ATTTTTAATTTTA
63561562 AAATA
1 AAATA
63561567 AAATTTTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 15 0.48
30 16 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
AAATATATATTTTTACATTTTTAATTTTA
Found at i:63562368 original size:22 final size:23
Alignment explanation
Indices: 63562319--63562368 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
63562309 AATCATATTG
*
63562319 ATAATAAAAATAAAATTGAATCT
1 ATAATTAAAATAAAATTGAATCT
* *
63562342 A-AATTAAAATAAATTTTAAT-T
1 ATAATTAAAATAAAATTGAATCT
63562363 ATAATT
1 ATAATT
63562369 TACGTATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.09
22 20 0.87
23 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
ATAATTAAAATAAAATTGAATCT
Found at i:63569108 original size:23 final size:23
Alignment explanation
Indices: 63569081--63569127 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
63569071 ATTATACAAG
*
63569081 AATGGTTAGGTTTTAGTTTTAAT
1 AATGGTTAGATTTTAGTTTTAAT
63569104 AATGGTTAGATTTTAGTTTTAAT
1 AATGGTTAGATTTTAGTTTTAAT
63569127 A
1 A
63569128 CTTATATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (23 bp):
AATGGTTAGATTTTAGTTTTAAT
Found at i:63569581 original size:30 final size:30
Alignment explanation
Indices: 63569519--63569585 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
63569509 AAAAATTGAA
*
63569519 TGACTAAAATGAAAAAAAACTAATAGTTAGG
1 TGACTAAAAT-AAAAAAAACTAATAGTCAGG
*
63569550 TGACTAAAAT-AAAACAACTGAATAGTCAGG
1 TGACTAAAATAAAAAAAACT-AATAGTCAGG
63569580 TGACTA
1 TGACTA
63569586 TTCTTATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 8 0.24
30 15 0.45
31 10 0.30
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.22
Consensus pattern (30 bp):
TGACTAAAATAAAAAAAACTAATAGTCAGG
Found at i:63569791 original size:23 final size:23
Alignment explanation
Indices: 63569746--63569791 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
63569736 AATTTAATTG
*
63569746 TTAATTCAGTTAATGTTATTTTT
1 TTAATTCAGTTAATGTAATTTTT
* *
63569769 TTAATTC-GTTAGTGTAATATTT
1 TTAATTCAGTTAATGTAATTTTT
63569791 T
1 T
63569792 GAAATAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (23 bp):
TTAATTCAGTTAATGTAATTTTT
Found at i:63571333 original size:31 final size:31
Alignment explanation
Indices: 63571298--63571357 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
63571288 GTAACAACCC
*
63571298 AATGACTTAAATAAAAATTTTTGAATAGTCA
1 AATGACTTAAATAAAAATTTTCGAATAGTCA
*
63571329 AATGACTTAAATGAAAATTTTCGAATAGT
1 AATGACTTAAATAAAAATTTTCGAATAGT
63571358 TCAATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (31 bp):
AATGACTTAAATAAAAATTTTCGAATAGTCA
Found at i:63577660 original size:4 final size:4
Alignment explanation
Indices: 63577651--63577688 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
63577641 AACCTCATCA
63577651 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
63577689 TGCATTACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:63581799 original size:15 final size:15
Alignment explanation
Indices: 63581781--63581824 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
63581771 CATCAAAATA
*
63581781 ATCATCATCATCTCC
1 ATCATCATCACCTCC
63581796 ATCATCATCACCTCC
1 ATCATCATCACCTCC
63581811 ATC-TC--CACCTCC
1 ATCATCATCACCTCC
63581823 AT
1 AT
63581825 GATTAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
14 2 0.07
15 17 0.61
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (15 bp):
ATCATCATCACCTCC
Found at i:63583415 original size:5 final size:5
Alignment explanation
Indices: 63583405--63583430 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
63583395 TACAAGCCAG
63583405 ACCCA ACCCA ACCCA ACCCA ACCCA A
1 ACCCA ACCCA ACCCA ACCCA ACCCA A
63583431 TCAGATTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:63595396 original size:11 final size:11
Alignment explanation
Indices: 63595354--63595394 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
63595344 TGTTTTCTCC
63595354 CTATTTTGCTA
1 CTATTTTGCTA
*
63595365 CTATTTTACTA
1 CTATTTTGCTA
* *
63595376 CTATGTTGTTA
1 CTATTTTGCTA
63595387 CTATTTTG
1 CTATTTTG
63595395 TTGTTATTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:63599238 original size:6 final size:6
Alignment explanation
Indices: 63599227--63599261 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
63599217 CAAACATTAC
63599227 ATACAT ATACAT ATACAT ATACAT ATACAT ATACA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACA
63599262 AAGAAAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (6 bp):
ATACAT
Found at i:63606480 original size:9 final size:9
Alignment explanation
Indices: 63606466--63606540 Score: 98
Period size: 9 Copynumber: 8.2 Consensus size: 9
63606456 TTTGGTTAAA
63606466 AATTACCCG
1 AATTACCCG
63606475 AATTACCCG
1 AATTACCCG
63606484 AATTACCCG
1 AATTACCCG
*
63606493 -ATTAACCG
1 AATTACCCG
*
63606501 AATTAACCG
1 AATTACCCG
63606510 AATTACCCG
1 AATTACCCG
*
63606519 AAAATTACCCA
1 --AATTACCCG
63606530 AATTACCCG
1 AATTACCCG
63606539 AA
1 AA
63606541 AATTACCCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
8 7 0.12
9 44 0.75
11 8 0.14
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:63606503 original size:26 final size:26
Alignment explanation
Indices: 63606467--63606519 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
63606457 TTGGTTAAAA
* *
63606467 ATTACCCGAATTACCCGAATTACCCG
1 ATTAACCGAATTAACCGAATTACCCG
63606493 ATTAACCGAATTAACCGAATTACCCG
1 ATTAACCGAATTAACCGAATTACCCG
63606519 A
1 A
63606520 AAATTACCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (26 bp):
ATTAACCGAATTAACCGAATTACCCG
Found at i:63606533 original size:20 final size:20
Alignment explanation
Indices: 63606464--63606551 Score: 96
Period size: 20 Copynumber: 4.7 Consensus size: 20
63606454 TTTTTGGTTA
*
63606464 AAAATTACCCGAATTACCCG
1 AAAATTACCCAAATTACCCG
* *
63606484 --AATTACCC-GATTAACCG
1 AAAATTACCCAAATTACCCG
* *
63606501 --AATTAACCGAATTACCCG
1 AAAATTACCCAAATTACCCG
63606519 AAAATTACCCAAATTACCCG
1 AAAATTACCCAAATTACCCG
63606539 AAAATTACCCAAA
1 AAAATTACCCAAA
63606552 AAATTCGGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
17 14 0.24
18 15 0.26
20 29 0.50
ACGTcount: A:0.43, C:0.28, G:0.08, T:0.20
Consensus pattern (20 bp):
AAAATTACCCAAATTACCCG
Found at i:63606553 original size:11 final size:11
Alignment explanation
Indices: 63606510--63606552 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
63606500 GAATTAACCG
63606510 AATTACCCGAA
1 AATTACCCGAA
63606521 AATTACCC--A
1 AATTACCCGAA
63606530 AATTACCCGAA
1 AATTACCCGAA
63606541 AATTACCC-AA
1 AATTACCCGAA
63606551 AA
1 AA
63606553 AATTCGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.30
10 4 0.13
11 17 0.57
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.19
Consensus pattern (11 bp):
AATTACCCGAA
Found at i:63612254 original size:2 final size:2
Alignment explanation
Indices: 63612247--63612272 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
63612237 ATTCATATGT
63612247 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
63612273 GGTTGAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:63615968 original size:14 final size:15
Alignment explanation
Indices: 63615940--63615976 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
63615930 ATAAAATTTC
*
63615940 AAAGTAATT-TTAAT
1 AAAGTATTTCTTAAT
63615954 AAA-TATTTCTTAAT
1 AAAGTATTTCTTAAT
63615968 AAAGTATTT
1 AAAGTATTT
63615977 TTCATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 11 0.55
15 5 0.25
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (15 bp):
AAAGTATTTCTTAAT
Found at i:63622103 original size:4 final size:4
Alignment explanation
Indices: 63622096--63622129 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
63622086 GGTACGTACG
*
63622096 TACA TACA TACA TACA TACA TACA TATA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA
63622130 TGTGTCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:63622903 original size:19 final size:18
Alignment explanation
Indices: 63622864--63622898 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
63622854 ATAATAGTAT
63622864 TTAAAATTTAATTATTAAA
1 TTAAAATTT-ATTATTAAA
63622883 TTAAAATTT-TTATTAA
1 TTAAAATTTATTATTAA
63622899 CAATTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAATTTATTATTAAA
Found at i:63640546 original size:29 final size:30
Alignment explanation
Indices: 63640508--63640586 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 30
63640498 AAATTAAAAA
*
63640508 TTAATATATAGTAAAATTATATTTTAA-CCT
1 TTAA-ATATAGTAAAATTATATTTAAATCCT
** * * **
63640538 TTAAATATAAAAAAAATCTATTTAAATTTT
1 TTAAATATAGTAAAATTATATTTAAATCCT
63640568 TTAAA-ATAGTAAAATTATA
1 TTAAATATAGTAAAATTATA
63640587 AAATTATATT
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
29 27 0.73
30 10 0.27
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (30 bp):
TTAAATATAGTAAAATTATATTTAAATCCT
Found at i:63640859 original size:21 final size:21
Alignment explanation
Indices: 63640835--63640879 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
63640825 ATTTTTTTTT
* * *
63640835 ATTTAAATTATTTAAAGTAAA
1 ATTTAAATTAATAAAAATAAA
*
63640856 ATTTTAATTAATAAAAATAAA
1 ATTTAAATTAATAAAAATAAA
63640877 ATT
1 ATT
63640880 ATACTTTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTTAAATTAATAAAAATAAA
Found at i:63645384 original size:2 final size:2
Alignment explanation
Indices: 63645372--63645418 Score: 67
Period size: 2 Copynumber: 22.5 Consensus size: 2
63645362 TGATGTTGCA
*
63645372 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT -AT
63645416 AT A
1 AT A
63645419 ACGAAATCTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 37 0.90
3 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:63655450 original size:33 final size:33
Alignment explanation
Indices: 63655409--63655475 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
63655399 GATATATTTT
*
63655409 ATTCTATTATATTTGAAATATTATATTTTAATC
1 ATTCTATTATATTTAAAATATTATATTTTAATC
*
63655442 ATTCTATTATATTTAAAATGTTATATTTTAATC
1 ATTCTATTATATTTAAAATATTATATTTTAATC
63655475 A
1 A
63655476 CTTATATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (33 bp):
ATTCTATTATATTTAAAATATTATATTTTAATC
Found at i:63687221 original size:33 final size:32
Alignment explanation
Indices: 63687184--63687303 Score: 123
Period size: 33 Copynumber: 3.7 Consensus size: 32
63687174 TAAGAGGCTA
* * *
63687184 GAAGAAGAGGAGCATGAAGGAGCAATAAAACAC
1 GAAGAAGAGGAGCAGGAAGAAGGAAT-AAACAC
* * * **
63687217 GAAGAAGAGGAACGGGTAGAAGGAATCAAACGT
1 GAAGAAGAGGAGCAGGAAGAAGGAAT-AAACAC
63687250 GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
1 GAAGAAGAGGAGCAGGAAGAAGGAA-TAAACAC
* *
63687283 GAAGAAGAGGAGGAAGAAGAA
1 GAAGAAGAGGAGCAGGAAGAA
63687304 ACAAACAAAC
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
33 69 0.99
34 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.36, T:0.05
Consensus pattern (32 bp):
GAAGAAGAGGAGCAGGAAGAAGGAATAAACAC
Found at i:63687313 original size:66 final size:66
Alignment explanation
Indices: 63687184--63687323 Score: 160
Period size: 66 Copynumber: 2.1 Consensus size: 66
63687174 TAAGAGGCTA
* * * ** * *
63687184 GAAGAAGAGGAGCATGAAGGAGCAATAAAACACGAAGAAGAGGAACGGGTAGAAGGAATCAAACG
1 GAAGAAGAGGAGCAGGAAGAAGCAATAAAACACGAAGAAGAGGAACGGGAAGAAACAAACAAACA
63687249 T
66 T
*
63687250 GAAGAAGAGGAGCAGGAAGAAGGAAGT-AAACACGAAGAAGAGG-A-GGAAGAAGAAACAAACAA
1 GAAGAAGAGGAGCAGGAAGAAGCAA-TAAAACACGAAGAAGAGGAACGG--GAAGAAACAAACAA
63687312 ACAT
63 ACAT
63687316 GAAGAAGA
1 GAAGAAGA
63687324 AGAAGAGGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
64 2 0.03
65 1 0.02
66 59 0.94
67 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.33, T:0.05
Consensus pattern (66 bp):
GAAGAAGAGGAGCAGGAAGAAGCAATAAAACACGAAGAAGAGGAACGGGAAGAAACAAACAAACA
T
Found at i:63687314 original size:33 final size:33
Alignment explanation
Indices: 63687184--63687323 Score: 93
Period size: 33 Copynumber: 4.2 Consensus size: 33
63687174 TAAGAGGCTA
* * *
63687184 GAAGAAGAGGAGCATGAAGGAGCAATA-AAACAC
1 GAAGAAGAGGAGCAAGAAGAAACAA-ACAAACAC
* ** * ** * **
63687217 GAAGAAGAGGAACGGGTAGAAGGAATCAAACGT
1 GAAGAAGAGGAGCAAGAAGAAACAAACAAACAC
* ** **
63687250 GAAGAAGAGGAGCAGGAAGAAGGAAGTAAACAC
1 GAAGAAGAGGAGCAAGAAGAAACAAACAAACAC
* *
63687283 GAAGAAGAGGAGGAAGAAGAAACAAACAAACAT
1 GAAGAAGAGGAGCAAGAAGAAACAAACAAACAC
63687316 GAAGAAGA
1 GAAGAAGA
63687324 AGAAGAGGCT
Statistics
Matches: 83, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.53, C:0.09, G:0.33, T:0.05
Consensus pattern (33 bp):
GAAGAAGAGGAGCAAGAAGAAACAAACAAACAC
Found at i:63692639 original size:18 final size:18
Alignment explanation
Indices: 63692593--63692642 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
63692583 AACCCGAAAT
* *
63692593 CTGATCCTGATCCGGATC
1 CTGATCCTGACCCGGAAC
* *
63692611 CTGGTCTTGACCCGGAAC
1 CTGATCCTGACCCGGAAC
*
63692629 GTGATCCTGACCCG
1 CTGATCCTGACCCG
63692643 AAATCACCAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.24
Consensus pattern (18 bp):
CTGATCCTGACCCGGAAC
Found at i:63702992 original size:17 final size:18
Alignment explanation
Indices: 63702967--63703003 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
63702957 TTATTTAAAA
63702967 ATTATAAAT-ATATAAATT
1 ATTATAAATAATA-AAATT
63702985 ATTA-AAATAATAAAATT
1 ATTATAAATAATAAAATT
63703002 AT
1 AT
63703004 ATTTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTATAAATAATAAAATT
Found at i:63705036 original size:150 final size:152
Alignment explanation
Indices: 63704840--63705141 Score: 518
Period size: 150 Copynumber: 2.0 Consensus size: 152
63704830 AATGGACTAA
63704840 ATTGAAATTCTAGCATTTGGGGGGGGGGGTGCAAACTATAATTTTACCATATATTAACTTGAGAT
1 ATTGAAATTCTAGCATTTGGGGGGGGGGGTGCAAACTATAATTTTACCATATATTAACTTGAGAT
* * *
63704905 TTTATAAAATTTGGGTGACTAAAGTAGCTATTTTCCATTTTGGAGGGGACAATGGCCTCTGTCTC
66 TTTATAAAATTTGGGTGACTAAAGTAGCAATTTTCCACTTTGGAGGGGACAAGGGCCTCTGTCTC
63704970 CCCCCTTCCCTTCGCCCCCTGC
131 CCCCCTTCCCTTCGCCCCCTGC
*
63704992 ATTGAAATTCTTGCA-TTGGGGGGGGGGG-GCAAACTATAATTTTACCATATATTAACTTGAGAT
1 ATTGAAATTCTAGCATTTGGGGGGGGGGGTGCAAACTATAATTTTACCATATATTAACTTGAGAT
* * *
63705055 TTTATAAATTTTTGGTGATTAAAGTAGCAATTTTCCACTTTGGAGGGGACAAGGGCCTCTGTCTC
66 TTTATAAAATTTGGGTGACTAAAGTAGCAATTTTCCACTTTGGAGGGGACAAGGGCCTCTGTCTC
*
63705120 TCCCCTTCCCTTCGCCCCCTGC
131 CCCCCTTCCCTTCGCCCCCTGC
63705142 TTGTATGTCT
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
150 115 0.81
151 13 0.09
152 14 0.10
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (152 bp):
ATTGAAATTCTAGCATTTGGGGGGGGGGGTGCAAACTATAATTTTACCATATATTAACTTGAGAT
TTTATAAAATTTGGGTGACTAAAGTAGCAATTTTCCACTTTGGAGGGGACAAGGGCCTCTGTCTC
CCCCCTTCCCTTCGCCCCCTGC
Found at i:63707162 original size:31 final size:31
Alignment explanation
Indices: 63707127--63707190 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
63707117 TTAACATAAT
*
63707127 ATGCAAATTAATCCTTTTATATTTGATAAAA
1 ATGCAAATCAATCCTTTTATATTTGATAAAA
63707158 ATGCAAATCAATCCTTTTATATTTGATAAAA
1 ATGCAAATCAATCCTTTTATATTTGATAAAA
63707189 AT
1 AT
63707191 TTCATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (31 bp):
ATGCAAATCAATCCTTTTATATTTGATAAAA
Found at i:63713090 original size:5 final size:5
Alignment explanation
Indices: 63713078--63713110 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
63713068 TAAAATGAAA
63713078 TAAA- TAAAC TAAAC TAAAC TAAAC TAAAC TAAA
1 TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAA
63713111 GAAATACCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAC
Found at i:63713934 original size:14 final size:15
Alignment explanation
Indices: 63713912--63713988 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
63713902 CAATCAAACA
63713912 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
63713926 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
63713941 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
63713961 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
63713975 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
63713989 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:63713953 original size:20 final size:20
Alignment explanation
Indices: 63713928--63713967 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
63713918 AATATTTTCC
*
63713928 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
63713948 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
63713968 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:63713973 original size:34 final size:35
Alignment explanation
Indices: 63713916--63713982 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
63713906 CAAACACCAG
*
63713916 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
63713951 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
63713983 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:63717536 original size:30 final size:30
Alignment explanation
Indices: 63717500--63717568 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
63717490 TTAACATAGG
*
63717500 ATAAAATTACACTTTAA-CTCTTCTAAAAATA
1 ATAAAATTACA-TTTAATCCCTTC-AAAAATA
**
63717531 A-AAAATTTTATTTAATCCCTTCAAAAATA
1 ATAAAATTACATTTAATCCCTTCAAAAATA
63717560 ATAAAATTA
1 ATAAAATTA
63717569 TAAATTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 13 0.41
30 18 0.56
31 1 0.03
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (30 bp):
ATAAAATTACATTTAATCCCTTCAAAAATA
Found at i:63717811 original size:26 final size:26
Alignment explanation
Indices: 63717772--63717826 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
63717762 ACATTTAGAA
*
63717772 GAAAATCTCAAATCTACGAAGCCAATG
1 GAAAATCTAAAATCTACGAA-CCAATG
* *
63717799 GAAAA-CTAAAATCTAGGGACCAATG
1 GAAAATCTAAAATCTACGAACCAATG
63717824 GAA
1 GAA
63717827 TACAAGTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 9 0.36
26 11 0.44
27 5 0.20
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (26 bp):
GAAAATCTAAAATCTACGAACCAATG
Found at i:63718044 original size:31 final size:31
Alignment explanation
Indices: 63718009--63718105 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
63717999 GGTTAATTAA
*
63718009 AATTTGGTACCTAAATTTGATTTTAATATTC
1 AATTTGATACCTAAATTTGATTTTAATATTC
* * * **
63718040 AATTTGATACTTAAGTTT-TTCTTTTGT-TTC
1 AATTTGATACCTAAATTTGAT-TTTAATATTC
* * *
63718070 AATTTGATACGTGAATTTGGTTTTAATATTC
1 AATTTGATACCTAAATTTGATTTTAATATTC
63718101 AATTT
1 AATTT
63718106 AACACCTGTG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
30 23 0.45
31 28 0.55
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (31 bp):
AATTTGATACCTAAATTTGATTTTAATATTC
Found at i:63722721 original size:4 final size:4
Alignment explanation
Indices: 63722712--63722738 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
63722702 GGGTATATAT
63722712 GGAG GGAG GGAG GGAG GGAG GGAG GGA
1 GGAG GGAG GGAG GGAG GGAG GGAG GGA
63722739 TGAATAGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:63725048 original size:24 final size:23
Alignment explanation
Indices: 63725025--63725068 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
63725015 TTATTATATA
*
63725025 ATAA-ATATTTTTAT-ATTTTTT
1 ATAATATATTATTATAATTTTTT
63725046 ATAATATATTATTATAATTTTTT
1 ATAATATATTATTATAATTTTTT
63725069 CAACAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 9 0.45
23 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATAATATATTATTATAATTTTTT
Found at i:63741342 original size:17 final size:18
Alignment explanation
Indices: 63741322--63741358 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
63741312 TATGTAATAC
*
63741322 ATATACAAATAATTT-AT
1 ATATAAAAATAATTTGAT
63741339 ATATAAAAATAATTTGAT
1 ATATAAAAATAATTTGAT
63741357 AT
1 AT
63741359 GTTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATATAAAAATAATTTGAT
Found at i:63743554 original size:42 final size:42
Alignment explanation
Indices: 63743478--63743592 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
63743468 TCGTGTTTAC
* *
63743478 TTTCTGTTTAGCTCTCACGAGCTTCTGTTTAACCCTTATGGG
1 TTTCTGTTTAGCTCTCACGAGCTTCTGTTCAACCCTTATAGG
* * * *
63743520 TTTCCGTTCAGCTCTCACGAGTTTCTATTCAACCCTTATAGG
1 TTTCTGTTTAGCTCTCACGAGCTTCTGTTCAACCCTTATAGG
* *
63743562 TTTCTGTTTTGCTCTCATGAGCTTCTGTTCA
1 TTTCTGTTTAGCTCTCACGAGCTTCTGTTCA
63743593 GCCTTCGAGT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (42 bp):
TTTCTGTTTAGCTCTCACGAGCTTCTGTTCAACCCTTATAGG
Found at i:63744430 original size:40 final size:39
Alignment explanation
Indices: 63744367--63744473 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 39
63744357 AGCTTTAGTG
* *
63744367 GCATTAGCGGCATTATTTTAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGTT-TTTGAAAAACGCCGCTATAGATCGA
* *
63744407 GCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGGTCGA
1 GCATTAGCGGCG-TTTTTGAAAAACGCCGCTATAGATCGA
* * *
63744447 CCTTTAGCAGCGTTTTTCGAAAAACGC
1 GCATTAGCGGCGTTTTT-GAAAAACGC
63744474 AAACGCTGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
39 5 0.09
40 50 0.88
41 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (39 bp):
GCATTAGCGGCGTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:63744750 original size:14 final size:15
Alignment explanation
Indices: 63744713--63744753 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
63744703 TACTATTTAA
* *
63744713 GGTTTATGGATTATG
1 GGTTTAGGGGTTATG
63744728 GGTTTAGGGGTTATG
1 GGTTTAGGGGTTATG
63744743 GG-TTAGGGGTT
1 GGTTTAGGGGTT
63744754 TACGGTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (15 bp):
GGTTTAGGGGTTATG
Found at i:63745320 original size:15 final size:15
Alignment explanation
Indices: 63745300--63745333 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
63745290 AAAATCATGA
63745300 TTAACGTCTCAATCT
1 TTAACGTCTCAATCT
63745315 TTAACGTCTCAATCT
1 TTAACGTCTCAATCT
63745330 TTAA
1 TTAA
63745334 TCTTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (15 bp):
TTAACGTCTCAATCT
Found at i:63745630 original size:12 final size:13
Alignment explanation
Indices: 63745599--63745633 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
63745589 AAACGGCGAT
63745599 TCTTATAACTTCTG
1 TCTTATAACTTC-G
63745613 TCTTATAACTTC-
1 TCTTATAACTTCG
63745625 TCTTATAAC
1 TCTTATAAC
63745634 AAAAAGAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
14 12 0.57
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (13 bp):
TCTTATAACTTCG
Found at i:63748344 original size:42 final size:42
Alignment explanation
Indices: 63748264--63748545 Score: 304
Period size: 42 Copynumber: 6.6 Consensus size: 42
63748254 CCTTGAATAC
* *
63748264 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTAT
1 AAAGG-GGTTGCTATGTGCTGATTCCATCGTATCTTTGATTAT
*
63748307 AAAAGGGGCTT-CTATGTGCTGATTCC-TCGTATCTTTGAATAT
1 -AAAGGGG-TTGCTATGTGCTGATTCCATCGTATCTTTGATTAT
* * *
63748349 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTAATTAT
1 AAAGG-GGTTGCTATGTGCTGATTCCATCGTATCTTTGATTAT
* *
63748392 AAAAGGGGTTGATATGTGCTGATTCC--CAGTATCATTGATTAT
1 -AAAGGGGTTGCTATGTGCTGATTCCATC-GTATCTTTGATTAT
* * * * *
63748434 AGAGGTGGTTGCTAAGTGCTGATTCCATCGTAACCTTGATTTT
1 AAAGG-GGTTGCTATGTGCTGATTCCATCGTATCTTTGATTAT
* *
63748477 AAAAGGGGTTTCTATGTGCTGATTCC-TCGTATCCTTGATTAT
1 -AAAGGGGTTGCTATGTGCTGATTCCATCGTATCTTTGATTAT
*
63748519 AAGGGTGGTTGCTATGTGCTGATTCCA
1 AAAGG-GGTTGCTATGTGCTGATTCCA
63748546 CCATATATCA
Statistics
Matches: 202, Mismatches: 24, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
41 16 0.08
42 93 0.46
43 76 0.38
44 17 0.08
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (42 bp):
AAAGGGGTTGCTATGTGCTGATTCCATCGTATCTTTGATTAT
Found at i:63748399 original size:85 final size:84
Alignment explanation
Indices: 63748251--63748547 Score: 425
Period size: 85 Copynumber: 3.5 Consensus size: 84
63748241 TTAGAACGGA
*
63748251 TATCCTTGAATACAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTATAAAAGGGGC
1 TATCCTTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTATAAAAGGGG-
63748316 TTCTATGTGCTGATTCCTCG
65 TTCTATGTGCTGATTCCTCG
* *
63748336 TATCTTTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTAATTATAAAAGGGGT
1 TATCCTTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTATAAAAGGGGT
*
63748401 TGATATGTGCTGATTCC-CAG
66 T-CTATGTGCTGATTCCTC-G
* * * * * * *
63748421 TATCATTGATTATAGAGGTGGTTGCTAAGTGCTGATTCCATCGTAACCTTGATTTTAAAAGGGGT
1 TATCCTTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTATAAAAGGGG-
63748486 TTCTATGTGCTGATTCCTCG
65 TTCTATGTGCTGATTCCTCG
* * *
63748506 TATCCTTGATTATAAGGGTGGTTGCTATGTGCTGATTCCACC
1 TATCCTTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACC
63748548 ATATATCATT
Statistics
Matches: 190, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
84 3 0.02
85 184 0.97
86 3 0.02
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (84 bp):
TATCCTTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTATAAAAGGGGT
TCTATGTGCTGATTCCTCG
Found at i:63749762 original size:27 final size:28
Alignment explanation
Indices: 63749732--63749790 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
63749722 TACTAGCAGG
63749732 CCTAA-ACCCACCCAAGC-CCAAACTAAA
1 CCTAATACCCA-CCAAGCTCCAAACTAAA
*
63749759 CCTAATACCCACCAAGCTCCAAACTAAC
1 CCTAATACCCACCAAGCTCCAAACTAAA
63749787 CCTA
1 CCTA
63749791 GCCCAGCAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.41, C:0.44, G:0.03, T:0.12
Consensus pattern (28 bp):
CCTAATACCCACCAAGCTCCAAACTAAA
Found at i:63751237 original size:16 final size:18
Alignment explanation
Indices: 63751205--63751250 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
63751195 CATTACTTGA
*
63751205 ATACATAT-TGTACATAT
1 ATACATATATGTAAATAT
63751222 ATA-A-ATATGTAAATAT
1 ATACATATATGTAAATAT
63751238 ATACATATATGTA
1 ATACATATATGTA
63751251 TACCTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 12 0.48
17 4 0.16
18 7 0.28
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (18 bp):
ATACATATATGTAAATAT
Found at i:63757336 original size:133 final size:133
Alignment explanation
Indices: 63756956--63757904 Score: 1172
Period size: 133 Copynumber: 7.2 Consensus size: 133
63756946 NNNNNNNNNN
* * * * * * *
63756956 AGCAGTGGAATAGATTGAGGATTTTAGATCTTGTCTCCCTA-AGCAG-TAGTGGAGCAGATCAAA
1 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTTCCTACA-TAGACAGCGAAGCAGATCAAA
* *
63757019 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATTTCCCT
65 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
63757084 GGGC
130 GGGC
* * * *** * * * * *
63757088 AGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAG-TAGTGGAGTAGATCGAAG
1 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTTCCTACATAGACAGCGAAGCAGATCAAAG
* * * *
63757152 ATGGCGGATTTTTCCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
66 ATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
*
63757217 AGC
131 GGC
* *
63757220 TA-TAGTGGAATAGATTGAAGATTTCAGATCTTGCCTTCCTACATAGACAGCGAAGCAGATCAAA
1 -AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTTCCTACATAGACAGCGAAGCAGATCAAA
* ***
63757284 GATGGCAGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAAATAGTAATTCTATCTCCCT
65 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
63757349 GGGC
130 GGGC
* * * * *
63757353 AGCAGCGGAATAGATTGAAGATTTCAGATATTGTCTTCATGCATAAACAGCGAAGCAGATCAAAG
1 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTTCCTACATAGACAGCGAAGCAGATCAAAG
* * * * *
63757418 ATGGCGGATTATACCTCCATGTGGTTACAGTGGAGTACATTAAAGCTAGTAATTCTATCTCCCTG
66 ATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
63757483 GGC
131 GGC
* * **
63757486 AGCAGCGGAATAGATTGAAGATTTCAGATCTTGCCTTCCTGTATAGACAGCGAAGCAGATCAAAG
1 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTTCCTACATAGACAGCGAAGCAGATCAAAG
* * * *
63757551 ATGACATATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAACCAGTAATTCTA-CATCCCT
66 ATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCT
63757615 GGGC
130 GGGC
* * * *
63757619 AGCAGTAGAATAGATTGGAGATTTCAGATCTTGCCTTCCTGCATAGACAGCGAAGCAGATCAAAG
1 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTTCCTACATAGACAGCGAAGCAGATCAAAG
*
63757684 ATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
66 ATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
63757749 GGC
131 GGC
* * * * *** * * * * *
63757752 AACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAG-TAGTGGAGTAGATCGAAG
1 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTTCCTACATAGACAGCGAAGCAGATCAAAG
**
63757816 ATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
66 ATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
*
63757881 GTC
131 GGC
* * * *
63757884 GGCAGTAGAATCGATCGAAGA
1 AGCAGTGGAATAGATTGAAGA
63757905 ATAGCAAATC
Statistics
Matches: 714, Mismatches: 97, Indels: 12
0.87 0.12 0.01
Matches are distributed among these distances:
132 248 0.35
133 465 0.65
134 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (133 bp):
AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTTCCTACATAGACAGCGAAGCAGATCAAAG
ATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
GGC
Found at i:63757787 original size:44 final size:44
Alignment explanation
Indices: 63757739--63757836 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
63757729 CCAGTAATTC
* * *
63757739 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAACAGTGGAATAGATCGAAGATGACAGATCT
** * * *
63757783 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAACAGTGGAATAGATCGAAGATGACAGATCT
*
63757827 TACCTCCCTA
1 TATCTCCCTA
63757837 AGGTTACAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAACAGTGGAATAGATCGAAGATGACAGATCT
Found at i:63757878 original size:44 final size:44
Alignment explanation
Indices: 63757706--63757879 Score: 106
Period size: 44 Copynumber: 4.0 Consensus size: 44
63757696 ACCTCCCTGT
* *
63757706 GGTTACAGTAGAGTACATTGAAGCCAGTA-ATTCTATCTCCCTG
1 GGTTACAGTGGAGTACATTGAAGCCAGTACATTCTATCTCCCTA
** * * * *
63757749 GGCAACAGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCCTA
1 GGTTACAGTGGAGTACATTGAAGCCAGTACA-TTC-TATCTCCCTA
* * * * *** * * * *
63757793 GG-CAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAA
1 GGTTA-CAGTGGAGTACATTGAAGCCAGTACATTCTATCTCCCT-A
63757838 GGTTACAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTCCCT
1 GGTTACAGTGGAGTACATTGAAGCCAGTACATTCTATCTCCCT
63757880 GGTCGGCAGT
Statistics
Matches: 94, Mismatches: 29, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 21 0.22
44 45 0.48
45 21 0.22
46 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
GGTTACAGTGGAGTACATTGAAGCCAGTACATTCTATCTCCCTA
Found at i:63758533 original size:28 final size:28
Alignment explanation
Indices: 63758489--63758548 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
63758479 TACTAGCAGG
*
63758489 CCTAAACCCGCCCAAGC-CCAAACTAAA
1 CCTAAACCCACCCAAGCTCCAAACTAAA
* *
63758516 CCTAATACCCACCTAAGCTCCAAACTAAC
1 CCTAA-ACCCACCCAAGCTCCAAACTAAA
63758545 CCTA
1 CCTA
63758549 GCCCAGCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.18
28 10 0.36
29 13 0.46
ACGTcount: A:0.38, C:0.43, G:0.05, T:0.13
Consensus pattern (28 bp):
CCTAAACCCACCCAAGCTCCAAACTAAA
Found at i:63759221 original size:16 final size:15
Alignment explanation
Indices: 63759197--63759229 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
63759187 GAGGAAAATG
63759197 AAATTTTTTTAAGGA
1 AAATTTTTTTAAGGA
63759212 AAATTTTTTTAAGGA
1 AAATTTTTTTAAGGA
63759227 AAA
1 AAA
63759230 CGACGTCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (15 bp):
AAATTTTTTTAAGGA
Found at i:63761180 original size:35 final size:34
Alignment explanation
Indices: 63761124--63761203 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 34
63761114 TGTCTAATTA
* *
63761124 TATATAATTAATGATATTTAAA-TATAATTTATAT
1 TATATAATTAATGATAATTAAATTATAA-TAATAT
*
63761158 TATATGAATTTATGATAATTAAATTATAATAATAT
1 TATAT-AATTAATGATAATTAAATTATAATAATAT
*
63761193 TATATTATTAA
1 TATATAATTAA
63761204 ATAAATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 9 0.23
35 25 0.64
36 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (34 bp):
TATATAATTAATGATAATTAAATTATAATAATAT
Found at i:63761364 original size:107 final size:110
Alignment explanation
Indices: 63761220--63761437 Score: 388
Period size: 111 Copynumber: 2.0 Consensus size: 110
63761210 TAAAATATGC
63761220 CAATTGTATGGAAATGATAAAAATACATGTGTAATATGTG-A-ATATATATACATATATACATTT
1 CAATTGTATGGAAATGATAAAAATACATGTGTAATATGTGAATATATATATACATATATACATTT
*
63761283 GTATTAAAATTATTTATTTGCTTAAAATTTAAGTAAAAATATATA
66 GTATTAAAATTATTTATTTGCTTAAAATTTAAGTAAAAAGATATA
63761328 CAATTGTATGGAAATGAT-AAAATACATGTGTAATATGTGAATATATATATATACATATATACAT
1 CAATTGTATGGAAATGATAAAAATACATGTGTAATATGTG-A-ATATATATATACATATATACAT
63761392 TTGTATTAAAATTATTTATTTGCTTAAAATTTAAGTAAAAAGATAT
64 TTGTATTAAAATTATTTATTTGCTTAAAATTTAAGTAAAAAGATAT
63761438 TTATAATATT
Statistics
Matches: 105, Mismatches: 1, Indels: 5
0.95 0.01 0.05
Matches are distributed among these distances:
107 21 0.20
108 18 0.17
110 1 0.01
111 65 0.62
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.40
Consensus pattern (110 bp):
CAATTGTATGGAAATGATAAAAATACATGTGTAATATGTGAATATATATATACATATATACATTT
GTATTAAAATTATTTATTTGCTTAAAATTTAAGTAAAAAGATATA
Found at i:63761751 original size:12 final size:12
Alignment explanation
Indices: 63761734--63761774 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
63761724 AAGTAAAAAT
63761734 AAAAGAAACA-A
1 AAAAGAAACAGA
63761745 AAGAAG-AACAGA
1 AA-AAGAAACAGA
63761757 AAAAGAAACAGA
1 AAAAGAAACAGA
*
63761769 GAAAGA
1 AAAAGA
63761775 GGCCAAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.73, C:0.07, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAGAAACAGA
Found at i:63764412 original size:21 final size:21
Alignment explanation
Indices: 63764388--63764495 Score: 58
Period size: 21 Copynumber: 5.1 Consensus size: 21
63764378 CCGAAGGTTG
63764388 AACAGAAGCTCATGAAAGCTA
1 AACAGAAGCTCATGAAAGCTA
* * * * *
63764409 AACAGAAAC-CTATTAAGGTTG
1 AACAGAAGCTC-ATGAAAGCTA
* * *
63764430 AACGGAAGCTCGTGAGAGCTA
1 AACAGAAGCTCATGAAAGCTA
* * * * *
63764451 AACGGAAACCCAT-AAGGGTTA
1 AACAGAAGCTCATGAA-AGCTA
*
63764472 AACAGAAGCTCGTGAAAGCTA
1 AACAGAAGCTCATGAAAGCTA
63764493 AAC
1 AAC
63764496 GGAAAGTTCG
Statistics
Matches: 58, Mismatches: 25, Indels: 8
0.64 0.27 0.09
Matches are distributed among these distances:
20 2 0.03
21 53 0.91
22 3 0.05
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCATGAAAGCTA
Found at i:63764429 original size:42 final size:41
Alignment explanation
Indices: 63764373--63764500 Score: 168
Period size: 42 Copynumber: 3.1 Consensus size: 41
63764363 ATCGTTATTA
* * *
63764373 GAAACCC-GAAGGTTGAACAGAAGCTCATGAAAGCTAAACA
1 GAAACCCATAAGGTTGAACAGAAGCTCGTGAAAGCTAAACG
* * *
63764413 GAAACCTATTAAGGTTGAACGGAAGCTCGTGAGAGCTAAACG
1 GAAACCCA-TAAGGTTGAACAGAAGCTCGTGAAAGCTAAACG
*
63764455 GAAACCCATAAGGGTTAAACAGAAGCTCGTGAAAGCTAAACG
1 GAAACCCATAA-GGTTGAACAGAAGCTCGTGAAAGCTAAACG
63764497 GAAA
1 GAAA
63764501 GTTCGCAACA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 6 0.08
41 3 0.04
42 66 0.88
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (41 bp):
GAAACCCATAAGGTTGAACAGAAGCTCGTGAAAGCTAAACG
Found at i:63766553 original size:33 final size:33
Alignment explanation
Indices: 63766506--63766672 Score: 145
Period size: 33 Copynumber: 4.7 Consensus size: 33
63766496 TATACGTTAC
* *
63766506 TCGGTGGATTCAACACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAACACTTAGCAACCACCAATGAT
*
63766540 TCGGGGAATCAACACTTAGCAACCCCTTTCACATTCAAAGAT
1 TCGGGGAATCAACACTTAGCAA---C---CAC---CAATGAT
* * *
63766582 ACGGTGGAATCAGCACTTAACAACCACCAATGAT
1 TCGG-GGAATCAACACTTAGCAACCACCAATGAT
* * *
63766616 TCGGGGAATCAGCACTTAGCAACTACCAATGAA
1 TCGGGGAATCAACACTTAGCAACCACCAATGAT
*
63766649 TCGGGGAATCAAAACTTAGCAACC
1 TCGGGGAATCAACACTTAGCAACC
63766673 CCTTGACGGA
Statistics
Matches: 109, Mismatches: 14, Indels: 21
0.76 0.10 0.15
Matches are distributed among these distances:
33 64 0.59
34 13 0.12
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
42 8 0.07
43 16 0.15
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (33 bp):
TCGGGGAATCAACACTTAGCAACCACCAATGAT
Found at i:63766633 original size:76 final size:75
Alignment explanation
Indices: 63766507--63766777 Score: 279
Period size: 76 Copynumber: 3.8 Consensus size: 75
63766497 ATACGTTACT
* *
63766507 CGGTGGATTCAACACTTAGCAACCACCAGTGATTCGGGGAATCAACACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCC-TTCAC
63766572 ATTCAAAGATA
65 ATTCAAAGATA
* * *
63766583 CGGTGGAATCAGCACTTAACAACCACCAATGATTCGGGGAATCAGCACTTAGCAA---C-T-AC-
1 CGGTGGAATCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTCACA
*
63766642 --CAATGA-A
66 TTCAAAGATA
* * *
63766649 TCGG-GGAATCAAAACTTAGCAACC-CC-TTGA--C--GGAATCAGCACTTAGCAACTCCTTCAC
1 -CGGTGGAATCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTCAC
*
63766707 ATTTAAA-ATA
65 ATTCAAAGATA
* * * *
63766717 CTGTGGGATCAGCACTTAGCAACCACCAGTGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTT
63766778 GGGGGAATTA
Statistics
Matches: 160, Mismatches: 18, Indels: 36
0.75 0.08 0.17
Matches are distributed among these distances:
60 18 0.11
62 1 0.01
63 1 0.01
64 4 0.03
65 4 0.03
66 18 0.11
67 11 0.07
68 20 0.12
69 2 0.01
70 5 0.03
71 1 0.01
72 1 0.01
73 1 0.01
74 23 0.14
76 50 0.31
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (75 bp):
CGGTGGAATCAACACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTCACA
TTCAAAGATA
Found at i:63774080 original size:33 final size:34
Alignment explanation
Indices: 63774029--63774237 Score: 147
Period size: 33 Copynumber: 5.7 Consensus size: 34
63774019 TATCCGTTAC
* *
63774029 TCGGTGGATTCAGCACTTAGCAACCACCAGTTAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATTAT
*
63774063 TCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGAT
1 TCGGTGGAATCAGCACTTAGCAACCAC---CA-ATT-----AT
* * *
63774105 ACGGTGGAATCAGCATTTAGCAACCACCAATGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATTAT
*
63774139 TCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTCAAGT
1 TCGGTGGAATCAGCACTTAGCAACCAC---CA-ATT--A-T
* *
63774179 TATGGTGGAATCAGCACTTAGCAACCACCAATGAAT
1 T-CGGTGGAATCAGCACTTAGCAACCACCAAT-TAT
63774215 T-GG-GGAATCAGCACTTAGCAACC
1 TCGGTGGAATCAGCACTTAGCAACC
63774238 CCTTGGGGGA
Statistics
Matches: 141, Mismatches: 14, Indels: 41
0.72 0.07 0.21
Matches are distributed among these distances:
33 60 0.43
34 11 0.08
36 6 0.04
37 5 0.04
38 2 0.01
39 5 0.04
40 4 0.03
41 2 0.01
42 26 0.18
43 20 0.14
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAACCACCAATTAT
Found at i:63774225 original size:75 final size:76
Alignment explanation
Indices: 63774030--63774241 Score: 347
Period size: 76 Copynumber: 2.8 Consensus size: 76
63774020 ATCCGTTACT
* * *
63774030 CGGTGGATTCAGCACTTAGCAACCACCAGTTATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
63774095 ATTCAAAGATA
66 ATTCAAAGATA
*
63774106 CGGTGGAATCAGCATTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
63774171 ATTC-AAGTTA
66 ATTCAAAGATA
*
63774181 TGGTGGAATCAGCACTTAGCAACCACCAATGAATT-GGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATG-ATTCGGGGAATCAGCACTTAGCAACCCCTT
63774242 GGGGGAATCA
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
75 60 0.47
76 68 0.53
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAAGATA
Found at i:63774262 original size:102 final size:102
Alignment explanation
Indices: 63774141--63774380 Score: 363
Period size: 102 Copynumber: 2.4 Consensus size: 102
63774131 CCAATGATTC
* ** *
63774141 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGTTATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
63774206 CCAATGAATTGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATTGAGGAATCAACACTTAGCAACCCCTTG
* * *
63774243 GGGGAATCATCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
63774308 CCAATGAATTGAGGAATCAACACTTAGTAGCCCCTTG
66 CCAATGAATTGAGGAATCAACACTTAGCAACCCCTTG
* *
63774345 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAA
63774381 TGTACTCCGG
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 123 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATTGAGGAATCAACACTTAGCAACCCCTTG
Found at i:63786006 original size:28 final size:28
Alignment explanation
Indices: 63785949--63786006 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
63785939 GTCTAATTTG
* *
63785949 TAATTTTAGACATAAATTTAGTTTTGTA
1 TAATTTTAGACATAAATTTAGTATTCTA
* *
63785977 TAATTTTATACATAAAATTTTG-ATTCTA
1 TAATTTTAGACAT-AAATTTAGTATTCTA
63786005 TA
1 TA
63786007 CAATTTTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (28 bp):
TAATTTTAGACATAAATTTAGTATTCTA
Found at i:63789795 original size:21 final size:22
Alignment explanation
Indices: 63789766--63789812 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
63789756 CAGAAGGAGT
*
63789766 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
63789788 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
63789809 GAGT
1 GAGT
63789813 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:63792013 original size:42 final size:42
Alignment explanation
Indices: 63791957--63792071 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
63791947 TCGTGTTTAC
* ** *
63791957 TTTCTGTTTC-GCTCTCACGAGCTTCTGTTTAACGTTTATGGG
1 TTTCTG-TTCAGCTCTCACGAGCTTCTGTTCAACCCTTATAGG
*
63791999 TTTCTGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATAGG
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTTCAACCCTTATAGG
* *
63792041 TTTCTGTTTAGCTCTCATGAGCTTCTGTTCA
1 TTTCTGTTCAGCTCTCACGAGCTTCTGTTCA
63792072 GCCTTCGGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 3 0.05
42 61 0.95
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTCACGAGCTTCTGTTCAACCCTTATAGG
Found at i:63792068 original size:21 final size:21
Alignment explanation
Indices: 63791958--63792069 Score: 66
Period size: 21 Copynumber: 5.3 Consensus size: 21
63791948 CGTGTTTACT
* *
63791958 TTCTGTTTCGCTCTCACGAGC
1 TTCTGTTTAGCTCTCATGAGC
* * * *
63791979 TTCTGTTTAACGT-TTATGGGT
1 TTCTGTTTAGC-TCTCATGAGC
* *
63792000 TTCTGTTCAGCTCTCACGAGC
1 TTCTGTTTAGCTCTCATGAGC
* * * * * *
63792021 TTCCGTTCAACCCTTAT-AGGT
1 TTCTGTTTAGCTCTCATGA-GC
63792042 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTCATGAGC
63792063 TTCTGTT
1 TTCTGTT
63792070 CAGCCTTCGG
Statistics
Matches: 63, Mismatches: 24, Indels: 8
0.66 0.25 0.08
Matches are distributed among these distances:
20 2 0.03
21 59 0.94
22 2 0.03
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.43
Consensus pattern (21 bp):
TTCTGTTTAGCTCTCATGAGC
Found at i:63797760 original size:2 final size:2
Alignment explanation
Indices: 63797753--63797790 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
63797743 GATGAATTGC
63797753 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63797791 ATGGTATCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:63798070 original size:13 final size:14
Alignment explanation
Indices: 63798052--63798085 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
63798042 AAAGGGTACA
63798052 TTAATTTTTTTA-T
1 TTAATTTTTTTACT
*
63798065 TTAATTATTTTACT
1 TTAATTTTTTTACT
63798079 TTAATTT
1 TTAATTT
63798086 ATCAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (14 bp):
TTAATTTTTTTACT
Found at i:63801122 original size:14 final size:14
Alignment explanation
Indices: 63801103--63801137 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
63801093 AAAGGGTACA
63801103 TTAATTTTTTTAAT
1 TTAATTTTTTTAAT
* *
63801117 TTAATTATTTTACT
1 TTAATTTTTTTAAT
63801131 TTAATTT
1 TTAATTT
63801138 ATCAAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTAATTTTTTTAAT
Found at i:63808126 original size:5 final size:5
Alignment explanation
Indices: 63808116--63808144 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
63808106 ATATTGCTCT
63808116 TTATA TTATA TTATA TTATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTAT
63808145 GCATGCACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:63811645 original size:22 final size:20
Alignment explanation
Indices: 63811619--63811660 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
63811609 AATTATTTTA
63811619 ATTTAATTTATCAAAATTTGAT
1 ATTT-ATTT-TCAAAATTTGAT
*
63811641 ATTTATTTTTAAAATTTGAT
1 ATTTATTTTCAAAATTTGAT
63811661 GTTAAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTATTTTCAAAATTTGAT
Found at i:63819753 original size:13 final size:13
Alignment explanation
Indices: 63819735--63819760 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63819725 TTTATCAATT
63819735 AATATTTTTCTAA
1 AATATTTTTCTAA
63819748 AATATTTTTCTAA
1 AATATTTTTCTAA
63819761 GCTAAAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
AATATTTTTCTAA
Found at i:63820207 original size:32 final size:32
Alignment explanation
Indices: 63820166--63820231 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
63820156 GATGAATCAC
*
63820166 TCTCTCCCATTGCATCACATCAAAATTCAAAA
1 TCTCTCCCATTGCAGCACATCAAAATTCAAAA
*
63820198 TCTCTCCCATTGCAGCACATCAAGATTCAAAA
1 TCTCTCCCATTGCAGCACATCAAAATTCAAAA
63820230 TC
1 TC
63820232 GAAATGATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.32, G:0.06, T:0.27
Consensus pattern (32 bp):
TCTCTCCCATTGCAGCACATCAAAATTCAAAA
Found at i:63820456 original size:13 final size:15
Alignment explanation
Indices: 63820437--63820473 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
63820427 TTAATCTTTA
63820437 AAATTATAAAAT-AT
1 AAATTATAAAATAAT
63820451 -AATTATTAAAATAAT
1 AAATTA-TAAAATAAT
63820466 AAATTATA
1 AAATTATA
63820474 TTTTTACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.25
14 6 0.30
15 4 0.20
16 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTATAAAATAAT
Found at i:63820459 original size:22 final size:22
Alignment explanation
Indices: 63820434--63820498 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
63820424 AATTTAATCT
63820434 TTAAAATTATAAAATATAATTA
1 TTAAAATTATAAAATATAATTA
* * *
63820456 TTAAAATAATAAATTAT-ATTT
1 TTAAAATTATAAAATATAATTA
*
63820477 TTACAATTATAAAATTATAATT
1 TTAAAATTATAAAA-TATAATT
63820499 TAATTTCTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 14 0.40
22 18 0.51
23 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAAATTATAAAATATAATTA
Found at i:63834295 original size:15 final size:15
Alignment explanation
Indices: 63834275--63834303 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
63834265 CAAGGTGGAG
63834275 ATTATTAGTAGCATA
1 ATTATTAGTAGCATA
63834290 ATTATTAGTAGCAT
1 ATTATTAGTAGCAT
63834304 CTTTGACAAC
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:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (15 bp):
ATTATTAGTAGCATA
Found at i:63837607 original size:27 final size:27
Alignment explanation
Indices: 63837577--63837644 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
63837567 AAGGGAACAC
*
63837577 TGTTAGCGGCACCAAACAAGGAAACCT
1 TGTTGGCGGCACCAAACAAGGAAACCT
**
63837604 TGTTGGCGGCACCAAACAAGGATTCCT
1 TGTTGGCGGCACCAAACAAGGAAACCT
63837631 TGTTGGCGGCACCA
1 TGTTGGCGGCACCA
63837645 CCTTAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (27 bp):
TGTTGGCGGCACCAAACAAGGAAACCT
Found at i:63837718 original size:32 final size:32
Alignment explanation
Indices: 63837677--63837747 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
63837667 GTTGGTGGGG
* * *
63837677 GGAAGAAGGAGAGGGGAAGAAGAAGAAAGAAA
1 GGAAGAAGGAAAAGGAAAGAAGAAGAAAGAAA
* *
63837709 GGAAGAAGGAAAAGGAAAGGAGAGGAAAGAAA
1 GGAAGAAGGAAAAGGAAAGAAGAAGAAAGAAA
*
63837741 GAAAGAA
1 GGAAGAA
63837748 AAAGAATGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (32 bp):
GGAAGAAGGAAAAGGAAAGAAGAAGAAAGAAA
Found at i:63837739 original size:24 final size:24
Alignment explanation
Indices: 63837711--63837787 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 24
63837701 GAAAGAAAGG
*
63837711 AAGAAGGAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAGGAAAGGAGAGGA
63837735 AAGAAAG-AAA-GAAA--A-A-GA
1 AAGAAAGAAAAGGAAAGGAGAGGA
* *
63837753 ATGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAGGAAAGGAGAGGA
63837777 AAGAAAGAAAA
1 AAGAAAGAAAA
63837788 ATAAGGAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
18 8 0.19
19 4 0.09
20 5 0.12
22 4 0.09
23 4 0.09
24 18 0.42
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (24 bp):
AAGAAAGAAAAGGAAAGGAGAGGA
Found at i:63837751 original size:14 final size:14
Alignment explanation
Indices: 63837734--63837769 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
63837724 AAAGGAGAGG
63837734 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
*
63837748 AAAGAATGAAAGAA
1 AAAGAAAGAAAGAA
*
63837762 AAGGAAAG
1 AAAGAAAG
63837770 GGGAGGAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:63837759 original size:32 final size:32
Alignment explanation
Indices: 63837693--63837807 Score: 83
Period size: 32 Copynumber: 3.4 Consensus size: 32
63837683 AGGAGAGGGG
* *
63837693 AAGAAGAA-GAAAGAAAGGAAGAAGGAAAAGGA
1 AAGAA-AAGGAAAGAAAGAAAGAAGAAAAAGGA
* * *
63837725 AAGGAGAGGAAAGAAAGAAAGAA-AAAGAATGA
1 AAGAAAAGGAAAGAAAGAAAGAAGAAA-AAGGA
63837757 AAGAAAAGGAAAGGGGAGGAAAGAAAGAA-AAATAAGGA
1 AAGAAAAGG-AA----A-GAAAGAAAGAAGAAA-AAGGA
63837795 AAGAAAAGGAAAG
1 AAGAAAAGGAAAG
63837808 GAGAAGAGGA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
31 3 0.05
32 30 0.45
33 3 0.05
37 3 0.05
38 27 0.41
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (32 bp):
AAGAAAAGGAAAGAAAGAAAGAAGAAAAAGGA
Found at i:63837764 original size:42 final size:41
Alignment explanation
Indices: 63837699--63837868 Score: 155
Period size: 42 Copynumber: 4.3 Consensus size: 41
63837689 GGGGAAGAAG
* *
63837699 AAGAAAG-AAAGGAAGAAGGAAAAGGAAAGGAGAGGAAAGA
1 AAGAAAGAAAAAGAAGAAAGAAAAGGAAAGGAGAGGAAAGA
*
63837739 AAGAAAGAAAAAGAATGAAAGAAAAGGAAAGGGGAGGAAAGA
1 AAGAAAGAAAAAGAA-GAAAGAAAAGGAAAGGAGAGGAAAGA
* *
63837781 AAGAAA-AATAAG--GAAAGAAAAGGAAAGGAGAAGAGGAA-A
1 AAGAAAGAAAAAGAAGAAAGAAAAGGAAAGGAG-AG-GAAAGA
*
63837820 AA-AAAGAAAGAAGAAGAAGAGGGAAA-G-AAGGA-AGG-AAGA
1 AAGAAAGAAA-AAGAAGAA-A-GAAAAGGAAAGGAGAGGAAAGA
63837859 AA-AAAGAAAA
1 AAGAAAGAAAA
63837869 TAAGGTAATT
Statistics
Matches: 111, Mismatches: 8, Indels: 24
0.78 0.06 0.17
Matches are distributed among these distances:
38 23 0.21
39 18 0.16
40 15 0.14
41 11 0.10
42 38 0.34
43 2 0.02
44 4 0.04
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (41 bp):
AAGAAAGAAAAAGAAGAAAGAAAAGGAAAGGAGAGGAAAGA
Found at i:63837828 original size:22 final size:23
Alignment explanation
Indices: 63837776--63837836 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
63837766 AAAGGGGAGG
* *
63837776 AAAGAAAGAAAAATAAGGAAAGAA
1 AAAGAAAGAAGAA-GAGGAAAGAA
* *
63837800 AAGGAAAGGAGAAGAGGAAA-AA
1 AAAGAAAGAAGAAGAGGAAAGAA
63837822 AAAGAAAGAAGAAGA
1 AAAGAAAGAAGAAGA
63837837 AGAGGGAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 15 0.48
23 6 0.19
24 10 0.32
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (23 bp):
AAAGAAAGAAGAAGAGGAAAGAA
Found at i:63837857 original size:25 final size:24
Alignment explanation
Indices: 63837792--63837859 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
63837782 AGAAAAATAA
*
63837792 GGAAAGAA-AAGGAAAGGAGAAGAG
1 GGAAAGAAGAAGG-AAGAAGAAGAG
* * *
63837816 GAAAAAAAAGAAAGAAGAAGAAGAG
1 G-GAAAGAAGAAGGAAGAAGAAGAG
63837841 GGAAAGAAGGAAGGAAGAA
1 GGAAAGAA-GAAGGAAGAA
63837860 AAAAGAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 6 0.18
25 25 0.74
26 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (24 bp):
GGAAAGAAGAAGGAAGAAGAAGAG
Done.