Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 121 of 211
Found at i:34340268 original size:45 final size:45
Alignment explanation
Indices: 34340219--34340451 Score: 394
Period size: 45 Copynumber: 5.2 Consensus size: 45
34340209 TCGGCCATGG
* * * *
34340219 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* *
34340264 TGCTTCCTTAAATTCTTCCATGAATTATGCATAATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
34340309 TGCTTCCTCAAATTCTTCCATGGATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
34340354 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
34340399 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
34340444 TGCTTCCT
1 TGCTTCCT
34340452 TAATTTCATG
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 177 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:34341286 original size:20 final size:20
Alignment explanation
Indices: 34341263--34341316 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
34341253 AGTTTTTCCC
*
34341263 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
34341283 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
34341303 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
34341317 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:34341298 original size:30 final size:30
Alignment explanation
Indices: 34341263--34341336 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
34341253 AGTTTTTCCC
34341263 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
34341293 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
34341323 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
34341337 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:34341326 original size:20 final size:20
Alignment explanation
Indices: 34341263--34341327 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
34341253 AGTTTTTCCC
* * * *
34341263 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
34341283 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
34341302 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
34341323 AGCTC
1 AGCTC
34341328 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:34342263 original size:170 final size:170
Alignment explanation
Indices: 34341981--34342307 Score: 636
Period size: 170 Copynumber: 1.9 Consensus size: 170
34341971 AAAGCTTTAA
34341981 TTAAGAGAGATGCATGACCCATGCACCTAGCATTCGTCCAAGGGGGGTTGGATATGAATTGAAGA
1 TTAAGAGAGATGCATGACCCATGCACCTAGCATTCGTCCAAGGGGGGTTGGATATGAATTGAAGA
34342046 TGCACATTCATGGAACAAGGAAGCTTTCTTATTGGTTAAGCATGCATGAATGGGTTTTGGGAAGA
66 TGCACATTCATGGAACAAGGAAGCTTTCTTATTGGTTAAGCATGCATGAATGGGTTTTGGGAAGA
*
34342111 AACATGATTATTCAACCATGCATGAACGTAAGTTGAATTT
131 AACATGATTATTCAACCATCCATGAACGTAAGTTGAATTT
34342151 TTAAGAGAGATGCATGACCCATGCACCTAGCATTCGTCCAAGGGGGGTTGGATATGAATTGAAGA
1 TTAAGAGAGATGCATGACCCATGCACCTAGCATTCGTCCAAGGGGGGTTGGATATGAATTGAAGA
34342216 TGCACATTCATGGAACAAGGAAGCTTTCTTATTGGTTAAGCATGCATGAATGGGTTTTGGGAAGA
66 TGCACATTCATGGAACAAGGAAGCTTTCTTATTGGTTAAGCATGCATGAATGGGTTTTGGGAAGA
*
34342281 AACATGATTATTCAACTATCCATGAAC
131 AACATGATTATTCAACCATCCATGAAC
34342308 AGAGATTTAA
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 155 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (170 bp):
TTAAGAGAGATGCATGACCCATGCACCTAGCATTCGTCCAAGGGGGGTTGGATATGAATTGAAGA
TGCACATTCATGGAACAAGGAAGCTTTCTTATTGGTTAAGCATGCATGAATGGGTTTTGGGAAGA
AACATGATTATTCAACCATCCATGAACGTAAGTTGAATTT
Found at i:34344182 original size:16 final size:17
Alignment explanation
Indices: 34344161--34344194 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
34344151 CACGTTCTTA
34344161 ACTTGGATT-GGCCTTT
1 ACTTGGATTGGGCCTTT
34344177 ACTTGGATTGGGCCTTT
1 ACTTGGATTGGGCCTTT
34344194 A
1 A
34344195 TGACTCGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.41
Consensus pattern (17 bp):
ACTTGGATTGGGCCTTT
Found at i:34345317 original size:21 final size:20
Alignment explanation
Indices: 34345269--34345329 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
34345259 ATTTTCTTCA
* *
34345269 TTCAATTTTCAATTTC-TTT
1 TTCACTTTTCAATCTCTTTT
34345288 TTCACTTTTCAATCTCTTTT
1 TTCACTTTTCAATCTCTTTT
* *
34345308 TTCTCTTTTTCATTCTCTTTT
1 TTCAC-TTTTCAATCTCTTTT
34345329 T
1 T
34345330 CTTTTTCCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.39
20 7 0.19
21 15 0.42
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.66
Consensus pattern (20 bp):
TTCACTTTTCAATCTCTTTT
Found at i:34345330 original size:20 final size:20
Alignment explanation
Indices: 34345274--34345335 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
34345264 CTTCATTCAA
*
34345274 TTTTCAATT-TCTTTTTCAC-
1 TTTTC-ATTCTCTTTTTCTCT
*
34345293 TTTTCAATCTCTTTTTTCTCT
1 TTTTCATTCTC-TTTTTCTCT
34345314 TTTTCATTCTCTTTTTCT-T
1 TTTTCATTCTCTTTTTCTCT
34345333 TTT
1 TTT
34345336 CCTCACTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.05
19 11 0.30
20 14 0.38
21 10 0.27
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTCATTCTCTTTTTCTCT
Found at i:34353376 original size:22 final size:23
Alignment explanation
Indices: 34353351--34353399 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
34353341 ATCAGCTTCT
34353351 TTAATAC-ACCTATTAAGACACA
1 TTAATACGACCTATTAAGACACA
* *
34353373 TTAA-ACGACTTATTAGGACACA
1 TTAATACGACCTATTAAGACACA
34353395 TTAAT
1 TTAAT
34353400 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (23 bp):
TTAATACGACCTATTAAGACACA
Found at i:34363880 original size:20 final size:20
Alignment explanation
Indices: 34363834--34363880 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
34363824 AGCTTGTTTC
*
34363834 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
34363854 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
34363874 CAGCTCA
1 CAGCTCA
34363881 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:34368197 original size:20 final size:20
Alignment explanation
Indices: 34368151--34368197 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
34368141 TAGCTGTTTC
*
34368151 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
34368171 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
34368191 CAGCTCA
1 CAGCTCA
34368198 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:34373698 original size:30 final size:30
Alignment explanation
Indices: 34373664--34373736 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
34373654 AGATTCGATT
*
34373664 TCTTGATTTTCTTGAAAGCAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
*
34373694 TCTTGATTTTCTTGAAAATAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
34373724 TCTTGATTTTCTT
1 TCTTGATTTTCTT
34373737 TTTCCTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (30 bp):
TCTTGATTTTCTTGAAAACAAGAAAGTGAA
Found at i:34376001 original size:668 final size:666
Alignment explanation
Indices: 34374712--34376044 Score: 2048
Period size: 668 Copynumber: 2.0 Consensus size: 666
34374702 CCAACATTAC
* *
34374712 ATATATAGGCTTCCTACTACTTTCCTAACCCTATTAGGAAAACTAAGAAAAAACCTAATTGTTTG
1 ATATATAGGCCTCCTACTACTTTCCTAACCCTACTAGGAAAACTAAGAAAAAACCTAATTGTTTG
* *
34374777 AGTTTTAAAGGAAAATTCAGCCAAGGCCTTTAAATAGGCCTCTTGAACTGAATGTTTACATAGAA
66 ACTTTCAAAGG-AAATTCAGCCAAGGCCTTTAAATAGGCCTCTTGAACTGAATGTTTACATAGAA
* * *
34374842 TTTAATTCATAAAGTCTAAAAATTAAACTAAGTATTTAAAGAATTAAAACTTAACAAATTGGGCC
130 ATTAATTCATAAAGCCTAAAAATTAAACCAAGTATTTAAAGAATTAAAACTTAACAAATTGGGCC
* * *
34374907 ACTTTGACAATTTGGCCTGATTTTCAACTAAGTCTAGTTTGAACTTCTTGGTTGGGCTTGGAACA
195 ACTTTCACAATTTGGCCTGATTTTCAACTAAGTCTAATTTAAACTTCTTGGTTGGGCTTGGAACA
* ***
34374972 TCTTATTGGGCCGTGTCTCCAAGAAATTAGGCTTGTAATTTGTTCTCTCCCGAAATTGGTTCGTT
260 TCTTAATGGGCCGTGTCTCCAAGAAATTAGGCTTGTAATCCATTCTCTCCCGAAATTGGTTCGTT
* * *
34375037 GATGATCGTAACTAAGATCCAATACGCCTTAGCTGGAAGATTCGATTTCTTGGACCAAGATTTCT
325 GATGATCGTAACTAAGACCCAATACGCCTTAGCTGCAAGATTCGATTTCTTGGACCAAGATTTCC
* *
34375102 AAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGTAATATTGGACCAAGAT
390 AAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGCAAAATTGGACCAAGAT
34375167 TCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCGTACACGC
455 TCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCGTACACGC
* * * *
34375232 ATCTAAGGACTTGCTAATGAAGTCTTGAACGGTTCCATTTAGTTTCGTATGCATTTGTCTGGCCT
520 ATCTAAGGACTTGCTAATGAAGTCTTGAACGATTCCATTTAGTTTCATACGCATTTGCCTGGCCT
34375297 TTGACCTCGTTATTGGGCCTTGTGGTAACTTGAGCCCATCACGTTCTTGAGCTTGAGTTAGGCCT
585 TTGACCTCGTTATTGGGCCTTGTGGTAACTTGAGCCCATCACGTTCTTGAGCTTGAGTTAGGCCT
*
34375362 TTTTGACTCGTATCAAT
650 TTGTGACTCGTATCAAT
* * *
34375379 ATATATAGGCCTCCTGACTACTTTCCTAGCCCTGCTAGGAAAACTTAA-AAAAAACTTAATTG-T
1 ATATATAGGCCTCCT-ACTACTTTCCTAACCCTACTAGGAAAAC-TAAGAAAAAACCTAATTGTT
* * * * *
34375442 TGACTTTCAAGAGG-AGTGTC-GTTCAAGGCTTTTAAAT-GGCCCTCTTGGA-TAGAATTTTTAC
64 TGACTTTCAA-AGGAAAT-TCAG-CCAAGGCCTTTAAATAGG-CCTCTTGAACT-GAATGTTTAC
* * *
34375503 ATAGAAATTCATTCATAAAGCCTAAAAATTAAAACCAAGTATTTAAAGAATTAAAATTTTACAAA
124 ATAGAAATTAATTCATAAAGCCTAAAAATT-AAACCAAGTATTTAAAGAATTAAAACTTAACAAA
*
34375568 TTGGGCCACTTTCACAATTTGGCCTGATTTTCAATTAAGTCTAATTTAAACTTCTTGGTTGGGCT
188 TTGGGCCACTTTCACAATTTGGCCTGATTTTCAACTAAGTCTAATTTAAACTTCTTGGTTGGGCT
* * * * * *
34375633 TGGAACATCTTAATGGGCTGTTTCTTCAAGCATTTGGGCTTGTAATCCATTCTCTCCCGAAATTG
253 TGGAACATCTTAATGGGCCGTGTCTCCAAGAAATTAGGCTTGTAATCCATTCTCTCCCGAAATTG
* * * * *
34375698 GTTCGTTGATGCTCGTAACTGAGACCCAATGCGCTTTAGCTGCAATATTCGATTTCTTGGACCAA
318 GTTCGTTGATGATCGTAACTAAGACCCAATACGCCTTAGCTGCAAGATTCGATTTCTTGGACCAA
34375763 GATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGCAAAATTGGA
383 GATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGCAAAATTGGA
* *
34375828 CCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTTG
448 CCAAGATTCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCG
* * * *
34375893 TATATGCATCTAAGGCCTTGCTAATGAAGTCTTGAATGATTCCATTTAGTTTCATACGCATTTGC
513 TACACGCATCTAAGGACTTGCTAATGAAGTCTTGAACGATTCCATTTAGTTTCATACGCATTTGC
*
34375958 CTGGCCTTTGACCTCGTTATTGGGCCTTGTGGTAATTTGAGCCCATCACGTTCTTGAGCTTGAGT
578 CTGGCCTTTGACCTCGTTATTGGGCCTTGTGGTAACTTGAGCCCATCACGTTCTTGAGCTTGAGT
*
34376023 TGGGCCTTTGTGACTCGTATCA
643 TAGGCCTTTGTGACTCGTATCA
34376045 GAAATAGAAA
Statistics
Matches: 603, Mismatches: 55, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
666 6 0.01
667 82 0.14
668 512 0.85
669 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (666 bp):
ATATATAGGCCTCCTACTACTTTCCTAACCCTACTAGGAAAACTAAGAAAAAACCTAATTGTTTG
ACTTTCAAAGGAAATTCAGCCAAGGCCTTTAAATAGGCCTCTTGAACTGAATGTTTACATAGAAA
TTAATTCATAAAGCCTAAAAATTAAACCAAGTATTTAAAGAATTAAAACTTAACAAATTGGGCCA
CTTTCACAATTTGGCCTGATTTTCAACTAAGTCTAATTTAAACTTCTTGGTTGGGCTTGGAACAT
CTTAATGGGCCGTGTCTCCAAGAAATTAGGCTTGTAATCCATTCTCTCCCGAAATTGGTTCGTTG
ATGATCGTAACTAAGACCCAATACGCCTTAGCTGCAAGATTCGATTTCTTGGACCAAGATTTCCA
AGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGCAAAATTGGACCAAGATT
CGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCGTACACGCA
TCTAAGGACTTGCTAATGAAGTCTTGAACGATTCCATTTAGTTTCATACGCATTTGCCTGGCCTT
TGACCTCGTTATTGGGCCTTGTGGTAACTTGAGCCCATCACGTTCTTGAGCTTGAGTTAGGCCTT
TGTGACTCGTATCAAT
Found at i:34377010 original size:30 final size:30
Alignment explanation
Indices: 34376976--34377048 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
34376966 AGATTCGATT
*
34376976 TCTTGATTTTCTTGAAAGCAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
*
34377006 TCTTGATTTTCTTGAAAATAAGAAAGTGAA
1 TCTTGATTTTCTTGAAAACAAGAAAGTGAA
34377036 TCTTGATTTTCTT
1 TCTTGATTTTCTT
34377049 TTTCCTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (30 bp):
TCTTGATTTTCTTGAAAACAAGAAAGTGAA
Found at i:34379315 original size:668 final size:666
Alignment explanation
Indices: 34378026--34379358 Score: 1994
Period size: 668 Copynumber: 2.0 Consensus size: 666
34378016 CAAACATTAC
* *
34378026 ATATATAGGCTTCCTACTACTTTCCTAACCCTATTAGGAAAACTAAGAAAAAACCTAATTGTTTG
1 ATATATAGGCCTCCTACTACTTTCCTAACCCTACTAGGAAAACTAAGAAAAAACCTAATTGTTTG
* *
34378091 AGTTTTAAAGGAAAATTCAGCCAAGGCCTTTAAATAGGCCTCTTGAACTGAATGTTTACATAGAA
66 ACTTTCAAAGG-AAATTCAGCCAAGGCCTTTAAATAGGCCTCTTGAACTGAATGTTTACATAGAA
* * *
34378156 TTTAATTCATAAAGTCTAAAAATTAAACTAAGTATTTAAAGAATTAAAACTTAACAAATTGGGCC
130 ATTAATTCATAAAGCCTAAAAATTAAACCAAGTATTTAAAGAATTAAAACTTAACAAATTGGGCC
* * *
34378221 ACTTTGACAATTTGGCCTGATTTTCAACTAAGTCTAGTTTGAACTTCTTGGTTGGGCTTGGAACA
195 ACTTTCACAATTTGGCCTGATTTTCAACTAAGTCTAATTTAAACTTCTTGGTTGGGCTTGGAACA
* ***
34378286 TCTTATTGGGCCGTGTCTCCAAGAAATTAGGCTTGTAATTTGTTCTCTCCCGAAATTGGTTCGTT
260 TCTTAATGGGCCGTGTCTCCAAGAAATTAGGCTTGTAATCCATTCTCTCCCGAAATTGGTTCGTT
* * *
34378351 GATGATCGTAACTAAGATCCAATACGCCTTAGCTGGAAGATTCGATTTCTTGGACCAAGATTTCT
325 GATGATCGTAACTAAGACCCAATACGCCTTAGCTGCAAGATTCGATTTCTTGGACCAAGATTTCC
* *
34378416 AAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGTAATATTGGACCAAGAT
390 AAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGCAAAATTGGACCAAGAT
*
34378481 TCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCGTACACGC
455 TCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCGTACACAC
* * *
34378546 ATCTAAGGACTTGCTAATGAAGTCTTGAACGGTTCCATTTAGTTTCGTATGCATTTGTCTGGCCT
520 ATCTAAGGACTTGCTAATAAAGTCTTGAACGGTTCCATTTAGTTTCGAACGCATTTGTCTGGCCT
* * *
34378611 TTGACCTCGTTATTGGGCCTTGTGGTAACTTGAGCCCATCACGTTCTTGAGCTTGAGTTAGGCCT
585 TTGACCTCGTTATTGGGCCTTGTGGTAACTTGAGCCCATCACATCCTTGAGCTTGAATTAGGCCT
*
34378676 TTTTGACTCGTATCAAT
650 TTGTGACTCGTATCAAT
* * *
34378693 ATATATAGGCCTCCTGACTACTTTCCTAGCCCTGCTAGGAAAACTTAA-AAAAAACTTAATTG-T
1 ATATATAGGCCTCCT-ACTACTTTCCTAACCCTACTAGGAAAAC-TAAGAAAAAACCTAATTGTT
* * * * *
34378756 TGACTTTCAAGAGG-AGTGTC-GTTCAAGGCTTTTAAAT-GGCCCTCTTGGA-TAGAATTTTTAC
64 TGACTTTCAA-AGGAAAT-TCAG-CCAAGGCCTTTAAATAGG-CCTCTTGAACT-GAATGTTTAC
* * *
34378817 ATAGAAATTCATTCATAAAGCCTAAAAATTAAAACCAAGTATTTAAAGAATTAAAATTTTACAAA
124 ATAGAAATTAATTCATAAAGCCTAAAAATT-AAACCAAGTATTTAAAGAATTAAAACTTAACAAA
*
34378882 TTGGGCCACTTTCACAATTTGGCCTGATTTTCAATTAAGTCTAATTTAAACTTCTTGGTTGGGCT
188 TTGGGCCACTTTCACAATTTGGCCTGATTTTCAACTAAGTCTAATTTAAACTTCTTGGTTGGGCT
* * * * * *
34378947 TGGAACATCTTAATGGGCTGTTTCTTCAAGCATTTGGGCTTGTAATCCATTCTCTCCCGAAATTG
253 TGGAACATCTTAATGGGCCGTGTCTCCAAGAAATTAGGCTTGTAATCCATTCTCTCCCGAAATTG
* * * * *
34379012 GTTCGTTGATGCTCGTAACTGAGACCCAATGCGCTTTAGCTGCAATATTCGATTTCTTGGACCAA
318 GTTCGTTGATGATCGTAACTAAGACCCAATACGCCTTAGCTGCAAGATTCGATTTCTTGGACCAA
34379077 GATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGCAAAATTGGA
383 GATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGCAAAATTGGA
*
34379142 CCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCG
448 CCAAGATTCGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCG
** * * * * * *
34379207 TGTACACATCTAAGGCCTTGCTACTAAATTCTTGAATGGTTCTATTTAGTTTTGAACGCATTTGT
513 TACACACATCTAAGGACTTGCTAATAAAGTCTTGAACGGTTCCATTTAGTTTCGAACGCATTTGT
*
34379272 CTGGCCTTTGACCTCGTTATTGGGCCTTGTGGTAATTTGAGCCCATCACATCCTTGAGCTTGAAT
578 CTGGCCTTTGACCTCGTTATTGGGCCTTGTGGTAACTTGAGCCCATCACATCCTTGAGCTTGAAT
*
34379337 TGGGCCTTTGTGACTCGTATCA
643 TAGGCCTTTGTGACTCGTATCA
34379359 TTCCCCCCTT
Statistics
Matches: 597, Mismatches: 61, Indels: 15
0.89 0.09 0.02
Matches are distributed among these distances:
666 6 0.01
667 82 0.14
668 506 0.85
669 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (666 bp):
ATATATAGGCCTCCTACTACTTTCCTAACCCTACTAGGAAAACTAAGAAAAAACCTAATTGTTTG
ACTTTCAAAGGAAATTCAGCCAAGGCCTTTAAATAGGCCTCTTGAACTGAATGTTTACATAGAAA
TTAATTCATAAAGCCTAAAAATTAAACCAAGTATTTAAAGAATTAAAACTTAACAAATTGGGCCA
CTTTCACAATTTGGCCTGATTTTCAACTAAGTCTAATTTAAACTTCTTGGTTGGGCTTGGAACAT
CTTAATGGGCCGTGTCTCCAAGAAATTAGGCTTGTAATCCATTCTCTCCCGAAATTGGTTCGTTG
ATGATCGTAACTAAGACCCAATACGCCTTAGCTGCAAGATTCGATTTCTTGGACCAAGATTTCCA
AGATTTGAAATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAACAGCAAAATTGGACCAAGATT
CGATTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCCTTCGTACACACA
TCTAAGGACTTGCTAATAAAGTCTTGAACGGTTCCATTTAGTTTCGAACGCATTTGTCTGGCCTT
TGACCTCGTTATTGGGCCTTGTGGTAACTTGAGCCCATCACATCCTTGAGCTTGAATTAGGCCTT
TGTGACTCGTATCAAT
Found at i:34381123 original size:21 final size:21
Alignment explanation
Indices: 34381097--34381159 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
34381087 TTGGTATTTG
34381097 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
34381118 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
34381139 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
34381160 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:34382914 original size:21 final size:21
Alignment explanation
Indices: 34382863--34382919 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
34382853 CTCAATCTCT
*
34382863 CTTCTTTC-TTTTCTTTTTCA
1 CTTCTTTCAATTTCTTTTTCA
* *
34382883 CTCTCTCTCAATTTCTTTTTCT
1 CT-TCTTTCAATTTCTTTTTCA
* *
34382905 GTTCTTTCAAATTCT
1 CTTCTTTCAATTTCT
34382920 CCAAAGATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.07
21 16 0.55
22 11 0.38
ACGTcount: A:0.11, C:0.26, G:0.02, T:0.61
Consensus pattern (21 bp):
CTTCTTTCAATTTCTTTTTCA
Found at i:34385087 original size:29 final size:27
Alignment explanation
Indices: 34385047--34385100 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
34385037 ACCGTATGCA
34385047 TTTTTTTCTTTTCAATTTTTTTTGATT
1 TTTTTTTCTTTTCAATTTTTTTTGATT
* *
34385074 TTTTTTTCGATTTTGATTTTTTTTTGA
1 TTTTTTTC--TTTTCAATTTTTTTTGA
34385101 ACTCCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
29 15 0.65
ACGTcount: A:0.11, C:0.06, G:0.07, T:0.76
Consensus pattern (27 bp):
TTTTTTTCTTTTCAATTTTTTTTGATT
Found at i:34385438 original size:21 final size:21
Alignment explanation
Indices: 34385412--34385474 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
34385402 TTGGTATTTG
34385412 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
34385433 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
34385454 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
34385475 ATGGTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:34389644 original size:20 final size:20
Alignment explanation
Indices: 34389621--34389667 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
34389611 GGGTTAAGAT
*
34389621 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
34389641 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
34389661 TGAGCTG
1 TGAGCTG
34389668 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:34391388 original size:48 final size:48
Alignment explanation
Indices: 34391336--34391441 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
34391326 TTGTCTTTTC
*
34391336 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
34391384 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
34391432 TTTCTTTTTC
1 TTTCTTTTTC
34391442 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:34392554 original size:12 final size:12
Alignment explanation
Indices: 34392534--34392559 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34392524 TTTTTTTCGA
34392534 TTTTTTTTGAAT
1 TTTTTTTTGAAT
34392546 TTTTTTTTGAAT
1 TTTTTTTTGAAT
34392558 TT
1 TT
34392560 CTTCTCTTTT
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:34400930 original size:20 final size:21
Alignment explanation
Indices: 34400884--34400932 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
34400874 GCAAGCTAAT
*
34400884 TTCAGCTCAATTCCAGCTCCC
1 TTCAGCTCAATTCCAGCTCCA
* *
34400905 TT-AGCTCAATTCGA-CTTCA
1 TTCAGCTCAATTCCAGCTCCA
34400924 TTCAGCTCA
1 TTCAGCTCA
34400933 CTTGAGCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.21
20 17 0.71
21 2 0.08
ACGTcount: A:0.22, C:0.35, G:0.10, T:0.33
Consensus pattern (21 bp):
TTCAGCTCAATTCCAGCTCCA
Found at i:34400946 original size:20 final size:19
Alignment explanation
Indices: 34400923--34400970 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
34400913 ATTCGACTTC
34400923 ATTCAGCTCACTTGAGCTCA
1 ATTCAGCT-ACTTGAGCTCA
* *
34400943 ATTCCACCTATTTGAGCTCA
1 ATT-CAGCTACTTGAGCTCA
*
34400963 ATTTAGCT
1 ATTCAGCT
34400971 TCTTTCCAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.13
20 16 0.70
21 4 0.17
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (19 bp):
ATTCAGCTACTTGAGCTCA
Found at i:34404545 original size:12 final size:12
Alignment explanation
Indices: 34404524--34404581 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
34404514 TGGATTAAAA
34404524 AAAAAGAAAATCG
1 AAAAA-AAAATCG
34404537 AAAAAAAAATTC-
1 AAAAAAAAA-TCG
*
34404549 AAAAAAAAGT-G
1 AAAAAAAAATCG
34404560 -AAAAAAAATCG
1 AAAAAAAAATCG
34404571 AGCAAAAAAAA
1 A--AAAAAAAA
34404582 GAGAGAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
10 8 0.22
11 2 0.05
12 12 0.32
13 7 0.19
14 8 0.22
ACGTcount: A:0.74, C:0.07, G:0.10, T:0.09
Consensus pattern (12 bp):
AAAAAAAAATCG
Found at i:34406246 original size:12 final size:12
Alignment explanation
Indices: 34406229--34406259 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
34406219 CTCTTCTCTT
*
34406229 TTTTTTTTTTAA
1 TTTTTTTTTCAA
34406241 TTTTTTTTTCAA
1 TTTTTTTTTCAA
34406253 TTTTTTT
1 TTTTTTT
34406260 CATTCTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:34408116 original size:13 final size:15
Alignment explanation
Indices: 34408099--34408140 Score: 61
Period size: 13 Copynumber: 2.9 Consensus size: 15
34408089 TTAATATTCT
34408099 GCATTAAACAACA-A
1 GCATTAAACAACACA
34408113 -CATTAAACAACAGCA
1 GCATTAAACAACA-CA
34408128 GCATTAAACAACA
1 GCATTAAACAACA
34408141 GTAGCAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.48
15 1 0.04
16 12 0.48
ACGTcount: A:0.55, C:0.24, G:0.07, T:0.14
Consensus pattern (15 bp):
GCATTAAACAACACA
Found at i:34408146 original size:19 final size:16
Alignment explanation
Indices: 34408099--34408146 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
34408089 TTAATATTCT
34408099 GCATTAAACAACA--A
1 GCATTAAACAACAGCA
34408113 -CATTAAACAACAGCA
1 GCATTAAACAACAGCA
*
34408128 GCATTAAACAACAGTA
1 GCATTAAACAACAGCA
34408144 GCA
1 GCA
34408147 AAACACATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 12 0.40
15 1 0.03
16 17 0.57
ACGTcount: A:0.52, C:0.23, G:0.10, T:0.15
Consensus pattern (16 bp):
GCATTAAACAACAGCA
Found at i:34408233 original size:16 final size:16
Alignment explanation
Indices: 34408212--34408245 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34408202 GTTTGAGACA
34408212 TAATTAAACACTTAAT
1 TAATTAAACACTTAAT
**
34408228 TAATTAAGTACTTAAT
1 TAATTAAACACTTAAT
34408244 TA
1 TA
34408246 GGTCATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATTAAACACTTAAT
Found at i:34423635 original size:23 final size:22
Alignment explanation
Indices: 34423584--34423635 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
34423574 CCTCGTCTTT
*
34423584 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
34423606 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
34423629 TTCTTTT
1 TTCTTTT
34423636 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:34423644 original size:12 final size:12
Alignment explanation
Indices: 34423593--34423648 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
34423583 TTTCTTTTGT
34423593 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
34423606 -TCATTTTC-TC
1 TTCTTTTTCAAC
34423616 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
34423629 TTCTTTTTCAAT
1 TTCTTTTTCAAC
34423641 TTCTTTTT
1 TTCTTTTT
34423649 GTTTCACATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.11
12 23 0.66
13 7 0.20
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:34428988 original size:20 final size:20
Alignment explanation
Indices: 34428965--34429003 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34428955 TAGCCTAACG
34428965 AGCTCATTCTT-AGCTCATTC
1 AGCTCA-TCTTAAGCTCATTC
34428985 AGCTCATCTTAAGCTCATT
1 AGCTCATCTTAAGCTCATT
34429004 TTAGTTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.38
Consensus pattern (20 bp):
AGCTCATCTTAAGCTCATTC
Found at i:34431237 original size:45 final size:45
Alignment explanation
Indices: 34431173--34431360 Score: 313
Period size: 45 Copynumber: 4.2 Consensus size: 45
34431163 CATGAAATTA
*
34431173 AGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
34431218 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* *
34431263 AGGAAGCATTTGACCAACATCATGCATAATTAATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
34431308 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
34431353 AGGAAGCA
1 AGGAAGCA
34431361 CCATGGCCGA
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 135 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:34439486 original size:13 final size:14
Alignment explanation
Indices: 34439467--34439522 Score: 87
Period size: 13 Copynumber: 4.0 Consensus size: 14
34439457 ACTAGCTCTC
*
34439467 TTTTTTTTTTACAA
1 TTTTTTTTTCACAA
34439481 TTTTTTTTTTCACAA
1 -TTTTTTTTTCACAA
34439496 TTTTTTTTTCA-AA
1 TTTTTTTTTCACAA
34439509 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
34439523 CTTGATATCC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
13 13 0.33
14 13 0.33
15 13 0.33
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:34439487 original size:15 final size:15
Alignment explanation
Indices: 34439467--34439522 Score: 84
Period size: 14 Copynumber: 4.0 Consensus size: 15
34439457 ACTAGCTCTC
34439467 TTTTTTTTTT-ACAA
1 TTTTTTTTTTCACAA
34439481 TTTTTTTTTTCACAA
1 TTTTTTTTTTCACAA
34439496 -TTTTTTTTTCA-AA
1 TTTTTTTTTTCACAA
34439509 -TTTTTTTTTCACAA
1 TTTTTTTTTTCACAA
34439523 CTTGATATCC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.32
14 23 0.57
15 4 0.10
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTTTTTTCACAA
Found at i:34439512 original size:27 final size:28
Alignment explanation
Indices: 34439468--34439522 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
34439458 CTAGCTCTCT
*
34439468 TTTTTTTTTACAATTTTTTTTTTCACAA
1 TTTTTTTTTACAAATTTTTTTTTCACAA
34439496 TTTTTTTTT-CAAATTTTTTTTTCACAA
1 TTTTTTTTTACAAATTTTTTTTTCACAA
34439523 CTTGATATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTTTTTTACAAATTTTTTTTTCACAA
Found at i:34439578 original size:11 final size:11
Alignment explanation
Indices: 34439562--34439603 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
34439552 GAAACTAGTT
34439562 TTTTTTTTGAA
1 TTTTTTTTGAA
34439573 TTTTTTTTGAA
1 TTTTTTTTGAA
*
34439584 TTTTTTTTCGAG
1 TTTTTTTT-GAA
34439596 TTTTTTTT
1 TTTTTTTT
34439604 TCGAGAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:34439578 original size:12 final size:12
Alignment explanation
Indices: 34439561--34439604 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
34439551 GGAAACTAGT
34439561 TTTTTTTTTGAA
1 TTTTTTTTTGAA
34439573 -TTTTTTTTGAA
1 TTTTTTTTTGAA
* *
34439584 TTTTTTTTCGAG
1 TTTTTTTTTGAA
34439596 TTTTTTTTT
1 TTTTTTTTT
34439605 CGAGAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:34439605 original size:13 final size:13
Alignment explanation
Indices: 34439561--34439609 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
34439551 GGAAACTAGT
*
34439561 TTTTTTTTTGA-A
1 TTTTTTTTCGAGA
34439573 TTTTTTTT-GA-A
1 TTTTTTTTCGAGA
*
34439584 TTTTTTTTCGAGT
1 TTTTTTTTCGAGA
34439597 TTTTTTTTCGAGA
1 TTTTTTTTCGAGA
34439610 AACTACTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 11 0.33
12 10 0.30
13 12 0.36
ACGTcount: A:0.14, C:0.04, G:0.12, T:0.69
Consensus pattern (13 bp):
TTTTTTTTCGAGA
Found at i:34444318 original size:45 final size:45
Alignment explanation
Indices: 34444254--34444486 Score: 394
Period size: 45 Copynumber: 5.2 Consensus size: 45
34444244 CATGAAATTA
* *
34444254 AGGAAGCATTTGGCCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
34444299 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
34444344 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* *
34444389 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAATAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
34444434 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
34444479 AGGAAGCA
1 AGGAAGCA
34444487 CCATGGCCGA
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 179 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:34447852 original size:23 final size:22
Alignment explanation
Indices: 34447800--34447852 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34447790 TCCACGTCTT
*
34447800 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
34447822 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
34447845 TTTCTTTT
1 TTTCTTTT
34447853 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:34450580 original size:23 final size:23
Alignment explanation
Indices: 34450554--34450615 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
34450544 TGGTTTTGGG
**
34450554 TTTGTTACGAAATGGTAATGTGA
1 TTTGTTACGAAATGGTAATACGA
34450577 TTTGGTT-CGAAATGGTAATACGA
1 TTT-GTTACGAAATGGTAATACGA
*
34450600 TTTGGTACGAAATGGT
1 TTTGTTACGAAATGGT
34450616 TATGGTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.06
23 29 0.85
24 3 0.09
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.37
Consensus pattern (23 bp):
TTTGTTACGAAATGGTAATACGA
Found at i:34455108 original size:46 final size:42
Alignment explanation
Indices: 34455021--34455104 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 42
34455011 AACTCGAAAC
34455021 ACTTTATTTTTAATTCTTGAATTTTTTTTTAAATTTCAATTT
1 ACTTTATTTTTAATTCTTGAATTTTTTTTTAAATTTCAATTT
34455063 ACTTT-TTTTTAATTTCGTATGAATATTTTTTTTAAATTTCAA
1 ACTTTATTTTTAA-TTC-T-TGAAT-TTTTTTTTAAATTTCAA
34455105 ATTTTTTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
41 7 0.18
42 8 0.21
43 1 0.03
44 5 0.13
45 17 0.45
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (42 bp):
ACTTTATTTTTAATTCTTGAATTTTTTTTTAAATTTCAATTT
Found at i:34455424 original size:23 final size:23
Alignment explanation
Indices: 34455391--34455452 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
34455381 CAGTTTTGGG
* **
34455391 TTTGTTACGAAATGGTAATGTGA
1 TTTGGTACGAAATGGTAATACGA
*
34455414 TTTGGTTCGAAATGGTAATACGA
1 TTTGGTACGAAATGGTAATACGA
*
34455437 TTTGGTACGGAATGGT
1 TTTGGTACGAAATGGT
34455453 TATGGTTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.37
Consensus pattern (23 bp):
TTTGGTACGAAATGGTAATACGA
Found at i:34460205 original size:13 final size:12
Alignment explanation
Indices: 34460147--34460204 Score: 89
Period size: 12 Copynumber: 4.8 Consensus size: 12
34460137 TTGTAGATTC
34460147 AAAAAAAATCGA
1 AAAAAAAATCGA
34460159 AAAAAAAATCGA
1 AAAAAAAATCGA
*
34460171 AAAAAAAATTGA
1 AAAAAAAATCGA
*
34460183 AAAAAAAATTTGA
1 AAAAAAAA-TCGA
34460196 AAAAAAAAT
1 AAAAAAAAT
34460205 TGCATACGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
12 32 0.73
13 12 0.27
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAAAATCGA
Found at i:34462475 original size:17 final size:18
Alignment explanation
Indices: 34462436--34462477 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
34462426 AAGAAGAAAA
34462436 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
34462453 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
34462470 TCAAAAGA
1 ACAAAAGA
34462478 AAAAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:34464140 original size:19 final size:18
Alignment explanation
Indices: 34464104--34464143 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34464094 TTTCCACTCG
*
34464104 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
34464122 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
34464141 TTT
1 TTT
34464144 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:34465226 original size:26 final size:27
Alignment explanation
Indices: 34465190--34465251 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
34465180 TAGCTCTCTC
34465190 TTTTTCA-AATTTTTTTTCAAA-TTTT
1 TTTTTCACAATTTTTTTTCAAATTTTT
34465215 TTTTTCACAATTTTTTTTCAAATTTTT
1 TTTTTCACAATTTTTTTTCAAATTTTT
34465242 TTTTTCACAA
1 TTTTTCACAA
34465252 CTTGATATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 7 0.20
26 14 0.40
27 14 0.40
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTTCACAATTTTTTTTCAAATTTTT
Found at i:34465245 original size:13 final size:12
Alignment explanation
Indices: 34465190--34465244 Score: 92
Period size: 13 Copynumber: 4.4 Consensus size: 12
34465180 TAGCTCTCTC
34465190 TTTTTCAAATTT
1 TTTTTCAAATTT
34465202 TTTTTCAAATTTT
1 TTTTTCAAA-TTT
34465215 TTTTTCACAATTT
1 TTTTTCA-AATTT
34465228 TTTTTCAAATTT
1 TTTTTCAAATTT
34465240 TTTTT
1 TTTTT
34465245 TTCACAACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.46
13 20 0.49
14 2 0.05
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTCAAATTT
Found at i:34465269 original size:27 final size:27
Alignment explanation
Indices: 34465206--34465269 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
34465196 AAATTTTTTT
* ** *
34465206 TCAAAT-TTTTTTTTCACAATTTTTTT
1 TCAAATCTTTTTTTTCACAACTTGATA
*
34465232 TCAAATTTTTTTTTTCACAACTTGATA
1 TCAAATCTTTTTTTTCACAACTTGATA
*
34465259 TCCAATCTTTT
1 TCAAATCTTTT
34465270 AAGTTTGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.25, C:0.16, G:0.02, T:0.58
Consensus pattern (27 bp):
TCAAATCTTTTTTTTCACAACTTGATA
Found at i:34465308 original size:11 final size:11
Alignment explanation
Indices: 34465292--34465334 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
34465282 AAACTAGTTT
34465292 TTTTTTTTGAA
1 TTTTTTTTGAA
34465303 TTTTTTTTTTGAA
1 --TTTTTTTTGAA
* *
34465316 TTTTTTTCGAG
1 TTTTTTTTGAA
34465327 TTTTTTTT
1 TTTTTTTT
34465335 CGAGAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 16 0.59
13 11 0.41
ACGTcount: A:0.12, C:0.02, G:0.09, T:0.77
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:34465308 original size:13 final size:13
Alignment explanation
Indices: 34465290--34465322 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
34465280 GGAAACTAGT
34465290 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
34465303 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
34465316 TTTTTTT
1 TTTTTTT
34465323 CGAGTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTGAA
Found at i:34468483 original size:13 final size:13
Alignment explanation
Indices: 34468459--34468518 Score: 72
Period size: 14 Copynumber: 4.8 Consensus size: 13
34468449 TTGTAAATTC
34468459 AAAAAAA-TGAAA
1 AAAAAAATTGAAA
* *
34468471 ATAAAAATCG--A
1 AAAAAAATTGAAA
34468482 AAAAAAATTGAAA
1 AAAAAAATTGAAA
34468495 AAAAAAATTTGAAA
1 AAAAAAA-TTGAAA
34468509 AAAAAAATTG
1 AAAAAAATTG
34468519 CATACGGTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 9 0.22
12 6 0.15
13 12 0.30
14 13 0.32
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (13 bp):
AAAAAAATTGAAA
Found at i:34468493 original size:24 final size:24
Alignment explanation
Indices: 34468459--34468513 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
34468449 TTGTAAATTC
*
34468459 AAAAAAATGAAAATAAAAA-TCGA
1 AAAAAAATGAAAAAAAAAATTCGA
*
34468482 AAAAAAATTGAAAAAAAAAATTTGA
1 AAAAAAA-TGAAAAAAAAAATTCGA
34468507 AAAAAAA
1 AAAAAAA
34468514 AATTGCATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 11 0.39
25 10 0.36
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (24 bp):
AAAAAAATGAAAAAAAAAATTCGA
Found at i:34491451 original size:38 final size:38
Alignment explanation
Indices: 34491391--34491566 Score: 198
Period size: 38 Copynumber: 4.6 Consensus size: 38
34491381 TACTCGTTCA
*
34491391 AATGCCTT-GCGGACATAGCCCGGTATAGTAACTCGCAC
1 AATGCCTTCG-GGACTTAGCCCGGTATAGTAACTCGCAC
*
34491429 AATGCCTTCGGGACTTAACCCGG-ATTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCAC
* *
34491467 AATGCCTTCGGG-CTTAGCCCGGAATAGTATCTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCAC
* * * *
34491504 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGG-TATAGTAACTCGCAC
*
34491544 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
34491567 ACATCATTCA
Statistics
Matches: 118, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
37 24 0.20
38 54 0.46
39 27 0.23
40 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCAC
Found at i:34491528 original size:76 final size:76
Alignment explanation
Indices: 34491391--34491567 Score: 214
Period size: 75 Copynumber: 2.3 Consensus size: 76
34491381 TACTCGTTCA
* * *
34491391 AATGCCTTGCGGACATAGCCCGGTATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGAT-T
1 AATGCCTT-CGGGCTTAGCCCGGAATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATAT
*
34491455 AGTAACTCGCAC
65 AGTAACTAGCAC
* **
34491467 AATGCCTTCGGGCTTAGCCCGGAATAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGAATAGTAACTCGCAC-AATGCCTTCGGGA-CTTAACCCGGATA
* *
34491531 TGGTCACTAGCAC
64 TAGTAACTAGCAC
*
34491544 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
34491568 CATCATTCAA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
75 28 0.32
76 27 0.31
77 21 0.24
78 11 0.13
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (76 bp):
AATGCCTTCGGGCTTAGCCCGGAATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATATA
GTAACTAGCAC
Found at i:34499213 original size:79 final size:81
Alignment explanation
Indices: 34499089--34499272 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
34499079 GCTACTCGTT
* *
34499089 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* *
34499152 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
34499168 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
34499231 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
34499248 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34499273 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 48 0.53
80 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:34499272 original size:40 final size:40
Alignment explanation
Indices: 34499070--34499272 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
34499060 CGGAATTTAA
** *
34499070 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34499110 CCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34499149 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34499188 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34499228 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34499268 CCGGA
1 CCGGA
34499273 CATCATTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 68 0.49
40 57 0.41
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34507144 original size:79 final size:82
Alignment explanation
Indices: 34507033--34507217 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
34507023 GCTACTCGTT
* * *
34507033 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
34507096 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
34507113 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
34507176 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
34507193 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34507218 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:34507217 original size:40 final size:40
Alignment explanation
Indices: 34507014--34507217 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
34507004 CGGAATTTAA
** *
34507014 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34507054 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34507094 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34507133 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34507173 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34507213 CCGGA
1 CCGGA
34507218 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34525532 original size:10 final size:10
Alignment explanation
Indices: 34525482--34525533 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
34525472 GCAATAGAGT
34525482 AAATGAGCTGG
1 AAATGAGCT-G
* **
34525493 AAATAAATTG
1 AAATGAGCTG
*
34525503 AAATGAGCTC
1 AAATGAGCTG
34525513 AAATGAGCTG
1 AAATGAGCTG
*
34525523 AAACGAGCTG
1 AAATGAGCTG
34525533 A
1 A
34525534 TTTAAGCTGA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
10 26 0.81
11 6 0.19
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (10 bp):
AAATGAGCTG
Found at i:34526675 original size:26 final size:26
Alignment explanation
Indices: 34526646--34526716 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
34526636 CATTCTGACA
* *
34526646 CACAGCTCATGTGAGCAGT-CCCATTT
1 CACAGCTCGTGTGAGCA-TACCCATTC
*
34526672 CACAGCTCGTGTGAGCATACTCATTC
1 CACAGCTCGTGTGAGCATACCCATTC
*
34526698 CACAACTCGTGTGAGCATA
1 CACAGCTCGTGTGAGCATA
34526717 TATGTACAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.03
26 39 0.98
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCATACCCATTC
Found at i:34527778 original size:15 final size:16
Alignment explanation
Indices: 34527758--34527787 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34527748 TGGTGCCTTG
34527758 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
34527773 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
34527788 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:34542229 original size:20 final size:20
Alignment explanation
Indices: 34542204--34542242 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34542194 TACTTTTTTC
34542204 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
34542224 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
34542243 AAATAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:34542572 original size:50 final size:50
Alignment explanation
Indices: 34542515--34542623 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 50
34542505 TATCCCAGAT
* ** * *
34542515 ATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAAAC
1 ATGGTCTTACAGGAGACCTCTCATATCGGTACCAATGCCATGTCCCAAAC
* * * * *
34542565 ATGGTCTTACGGGGGACCTCTCATCTTGGTACCAATGCCATGTCCCAGAC
1 ATGGTCTTACAGGAGACCTCTCATATCGGTACCAATGCCATGTCCCAAAC
34542615 ATGGTCTTA
1 ATGGTCTTA
34542624 TGTGGGACCT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACAGGAGACCTCTCATATCGGTACCAATGCCATGTCCCAAAC
Found at i:34544521 original size:35 final size:35
Alignment explanation
Indices: 34544479--34544551 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
34544469 TGTTTGCAAG
*
34544479 ATTGTTTGTTTAAATAATTAATTTCAAATCATGCA
1 ATTGTTTGTTTAAATAATTAATTTCAAATCATGAA
*
34544514 ATTGTTTGTTTAAATAATTAATTTCAAGTCATGAA
1 ATTGTTTGTTTAAATAATTAATTTCAAATCATGAA
34544549 ATT
1 ATT
34544552 AAGATAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (35 bp):
ATTGTTTGTTTAAATAATTAATTTCAAATCATGAA
Found at i:34550174 original size:52 final size:51
Alignment explanation
Indices: 34550117--34550248 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
34550107 ATGAACAAAT
* * *
34550117 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAAATAACATGA
* * *
34550169 GAGTTACATAATGCATGTCATAATTT-ATGATGTAAACTTAAATAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAAATAACATGA
* *
34550219 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
34550249 CAGAACACAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 33 0.48
51 13 0.19
52 23 0.33
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAAATAACATGA
Found at i:34550227 original size:50 final size:50
Alignment explanation
Indices: 34550090--34550237 Score: 174
Period size: 50 Copynumber: 2.9 Consensus size: 50
34550080 AAATGCATGG
* * * *
34550090 TTTAAGATGTAAAC-TAAATGAACA-AATGAGTTACTTAATGCATGACTTAA
1 TTTATGATGTAAACTTAAAT-AACATGA-GAGTTACATAATGCATGACATAA
* * * *
34550140 TTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGTCATAA
1 TTT-ATGATGTAAAC-TTAAATAACATGAGAGTTACATAATGCATGACATAA
34550192 TTTATGATGTAAACTTAAATAACATGAGAGTTACATAATGCATGAC
1 TTTATGATGTAAACTTAAATAACATGAGAGTTACATAATGCATGAC
34550238 TTTATTAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
50 32 0.39
51 19 0.23
52 27 0.33
53 4 0.05
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.32
Consensus pattern (50 bp):
TTTATGATGTAAACTTAAATAACATGAGAGTTACATAATGCATGACATAA
Found at i:34567893 original size:1 final size:1
Alignment explanation
Indices: 34567887--34567919 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
34567877 CAGAGTATAG
34567887 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
34567920 GCGGAAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:34568046 original size:38 final size:38
Alignment explanation
Indices: 34568003--34568090 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
34567993 ATTTTTCCTT
****
34568003 ATTTTGTTTCATTGTACATACCAGTTTTTTTTTCTTCC
1 ATTTTGTTTCATTGTACATACCACAGATTTTTTCTTCC
34568041 ATTTTGTTTCATTGTACATACCACAGATTTTTTCTTCC
1 ATTTTGTTTCATTGTACATACCACAGATTTTTTCTTCC
34568079 ATTTTGTTTCAT
1 ATTTTGTTTCAT
34568091 CAACATAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.56
Consensus pattern (38 bp):
ATTTTGTTTCATTGTACATACCACAGATTTTTTCTTCC
Found at i:34572008 original size:20 final size:20
Alignment explanation
Indices: 34571983--34572020 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34571973 ATTATATTAT
*
34571983 ATTAAAGAGACTGAAGAAAA
1 ATTAAAGAGACTAAAGAAAA
34572003 ATTAAAGAGACTAAAGAA
1 ATTAAAGAGACTAAAGAA
34572021 GCAATTATGC
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:0.61, C:0.05, G:0.18, T:0.16
Consensus pattern (20 bp):
ATTAAAGAGACTAAAGAAAA
Found at i:34572236 original size:19 final size:18
Alignment explanation
Indices: 34572178--34572234 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
34572168 AAAGAATTAA
* *
34572178 AAAGAAACAAAGTAAAAAC
1 AAAGAAAGAAAG-AAAAAG
*
34572197 AAA-ACAG-AAGAAAAAAG
1 AAAGAAAGAAAG-AAAAAG
34572214 AAAGAAAGAAAGAAAAAG
1 AAAGAAAGAAAGAAAAAG
34572232 AAA
1 AAA
34572235 AGGGAGAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.35
18 14 0.45
19 6 0.19
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAGAAAGAAAGAAAAAG
Found at i:34575369 original size:27 final size:26
Alignment explanation
Indices: 34575339--34575492 Score: 143
Period size: 27 Copynumber: 5.7 Consensus size: 26
34575329 AAATTGTACA
*
34575339 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
34575366 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
34575393 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
* * *
34575420 GCACTAAGTGTGCGGTCTAACTATGTA
1 GCACTAAGTGTGCGAT-TGACTATGTG
34575447 GCACTAAGTGTGCGATTTGA-T-TCGTG
1 GCACTAAGTGTGCGA-TTGACTAT-GTG
34575473 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGA-TTGA
34575493 TTGTATAGCA
Statistics
Matches: 106, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
25 1 0.01
26 23 0.22
27 78 0.74
28 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:34575399 original size:54 final size:53
Alignment explanation
Indices: 34575338--34575487 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 53
34575328 TAAATTGTAC
*
34575338 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAA-TATG-
1 AGCACTAAGTGTGCGATT-GACTATGTGGCACTAAGTGTGCGAAAT-AACTATGT
* * ***
34575391 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGTGGCACTAAGTGTGCGAAATAACTATGT
34575446 AGCACTAAGTGTGCGATTTGA-T-TCGTGGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA-TTGACTAT-GTGGCACTAAGTGTGCGA
34575488 GTTGATTGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
52 1 0.01
53 20 0.24
54 57 0.70
55 4 0.05
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTGACTATGTGGCACTAAGTGTGCGAAATAACTATGT
Found at i:34575511 original size:27 final size:26
Alignment explanation
Indices: 34575444--34575513 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
34575434 GTCTAACTAT
*
34575444 GTAGCACTAAGTGTGCGATTTGATTC
1 GTAGCACTAAGTGTGCGAGTTGATTC
*
34575470 GTGGCACTAAGTGTGCGAGTTGATT-
1 GTAGCACTAAGTGTGCGAGTTGATTC
*
34575495 GTATAGCACTGAGTGTGCG
1 G--TAGCACTAAGTGTGCG
34575514 GGCTCAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.03
26 23 0.61
27 14 0.37
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.31
Consensus pattern (26 bp):
GTAGCACTAAGTGTGCGAGTTGATTC
Found at i:34581688 original size:39 final size:40
Alignment explanation
Indices: 34581588--34581772 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
34581578 TTGAATGATG
* * * *
34581588 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** *
34581627 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
34581668 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
34581707 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
34581746 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGTTAAGTCCCGAAGGCATTTG
34581773 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 37 0.30
40 77 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:34581724 original size:79 final size:81
Alignment explanation
Indices: 34581588--34581772 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
34581578 TTGAATGATG
* *
34581588 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
34581652 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
34581667 TTCCGGGTTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
34581729 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
34581747 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34581773 AATGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:34581794 original size:79 final size:79
Alignment explanation
Indices: 34581641--34581805 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
34581631 GGACTAAGAT
* * * **
34581641 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
34581706 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
34581720 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
34581783 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34581799 CCGAAGG
1 CCGAAGG
34581806 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:34586869 original size:13 final size:13
Alignment explanation
Indices: 34586851--34586881 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
34586841 TTTCCTCTCC
34586851 TTTTTTTTCAATT
1 TTTTTTTTCAATT
34586864 TTTTTTTTCAATT
1 TTTTTTTTCAATT
34586877 TTTTT
1 TTTTT
34586882 AATTCAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTTCAATT
Found at i:34586887 original size:14 final size:13
Alignment explanation
Indices: 34586851--34586889 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
34586841 TTTCCTCTCC
34586851 TTTTTT-TTCAAT
1 TTTTTTATTCAAT
*
34586863 TTTTTTTTTCAAT
1 TTTTTTATTCAAT
34586876 TTTTTTAATTCAAT
1 TTTTTT-ATTCAAT
34586890 ACAATAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTATTCAAT
Found at i:34586948 original size:12 final size:12
Alignment explanation
Indices: 34586933--34586965 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
34586923 TTACACCTTG
34586933 AATTTTTTTTGA
1 AATTTTTTTTGA
34586945 AATTTTTTTTGA
1 AATTTTTTTTGA
34586957 AATTTTTTT
1 AATTTTTTT
34586966 CACAATGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (12 bp):
AATTTTTTTTGA
Found at i:34586950 original size:11 final size:11
Alignment explanation
Indices: 34586930--34586965 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
34586920 AAATTACACC
*
34586930 TTGAATTTTTT
1 TTGAAATTTTT
34586941 TTGAAATTTTTT
1 TTGAAA-TTTTT
34586953 TTGAAATTTTT
1 TTGAAATTTTT
34586964 TT
1 TT
34586966 CACAATGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
TTGAAATTTTT
Found at i:34589634 original size:5 final size:5
Alignment explanation
Indices: 34589624--34589651 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
34589614 GAGCTGTAGC
34589624 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
34589652 CTAATACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:34594334 original size:13 final size:13
Alignment explanation
Indices: 34594307--34594351 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
34594297 CTTTTTTATA
34594307 TTTTCTCATTTTTC
1 TTTTCTCA-TTTTC
34594321 TTTTCTCATTTTC
1 TTTTCTCATTTTC
* *
34594334 TTTTCAC-TTTCC
1 TTTTCTCATTTTC
34594346 TTTTCT
1 TTTTCT
34594352 ACTATTGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 9 0.32
13 11 0.39
14 8 0.29
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCTCATTTTC
Found at i:34594408 original size:18 final size:18
Alignment explanation
Indices: 34594363--34594415 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
34594353 CTATTGCCTT
*
34594363 TTCTTTTTTTTCATTTGGC
1 TTCTTTTTTTTCATTT-TC
* *
34594382 TT-TTCTTTTTCGTTTTC
1 TTCTTTTTTTTCATTTTC
*
34594399 TTCTTTTTTTTCCTTTT
1 TTCTTTTTTTTCATTTT
34594416 TCATTAGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 3 0.11
18 23 0.82
19 2 0.07
ACGTcount: A:0.02, C:0.17, G:0.06, T:0.75
Consensus pattern (18 bp):
TTCTTTTTTTTCATTTTC
Found at i:34606128 original size:13 final size:13
Alignment explanation
Indices: 34606107--34606140 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34606097 ATAAGTTGTT
* *
34606107 GTTAGTTAAATTA
1 GTTAATTAAATAA
34606120 GTTAATTAAATAA
1 GTTAATTAAATAA
34606133 GTTAATTA
1 GTTAATTA
34606141 GTTTGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:34607950 original size:12 final size:12
Alignment explanation
Indices: 34607929--34607983 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
34607919 AAAGAAGAGG
*
34607929 AAATTCAAAAAA
1 AAATTGAAAAAA
34607941 AAATTG-AAAAA
1 AAATTGAAAAAA
34607952 AAATTG--AAAA
1 AAATTGAAAAAA
34607962 AAATTGAAAAAA
1 AAATTGAAAAAA
34607974 AAATTCGAAA
1 AAATT-GAAA
34607984 TATTAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
10 10 0.26
11 11 0.28
12 14 0.36
13 4 0.10
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (12 bp):
AAATTGAAAAAA
Found at i:34607952 original size:10 final size:10
Alignment explanation
Indices: 34607937--34607974 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
34607927 GGAAATTCAA
34607937 AAAAAAATTG
1 AAAAAAATTG
34607947 AAAAAAAATTG
1 -AAAAAAATTG
34607958 AAAAAAATTG
1 AAAAAAATTG
34607968 AAAAAAA
1 AAAAAAA
34607975 AATTCGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:34607952 original size:11 final size:11
Alignment explanation
Indices: 34607936--34607975 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
34607926 AGGAAATTCA
34607936 AAAAAAAATTG
1 AAAAAAAATTG
34607947 AAAAAAAATTG
1 AAAAAAAATTG
34607958 -AAAAAAATTG
1 AAAAAAAATTG
34607968 AAAAAAAA
1 AAAAAAAA
34607976 ATTCGAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:34608914 original size:17 final size:17
Alignment explanation
Indices: 34608888--34608928 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
34608878 AAATCGAAAG
*
34608888 AAAAGAAAAAGAGATTAA
1 AAAAGAAAAAGA-AATAA
34608906 AAAAGAAAAAGAAATAA
1 AAAAGAAAAAGAAATAA
34608923 AAAAGA
1 AAAAGA
34608929 GAGTGAGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (17 bp):
AAAAGAAAAAGAAATAA
Found at i:34610763 original size:13 final size:13
Alignment explanation
Indices: 34610742--34610776 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
34610732 ATAAGTTGTT
* *
34610742 GTTAGTTAAATTA
1 GTTAATTAAATAA
34610755 GTTAATTAAATAA
1 GTTAATTAAATAA
34610768 GTTAATTAA
1 GTTAATTAA
34610777 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:34612178 original size:20 final size:20
Alignment explanation
Indices: 34612153--34612199 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34612143 AGCTCGTTTC
34612153 CAGCTCACGT-GAGCTCAAGT
1 CAGCTCA-GTCGAGCTCAAGT
* *
34612173 CAGCTCATTCGAGCTCAATT
1 CAGCTCAGTCGAGCTCAAGT
34612193 CAGCTCA
1 CAGCTCA
34612200 ATCTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (20 bp):
CAGCTCAGTCGAGCTCAAGT
Found at i:34612201 original size:10 final size:10
Alignment explanation
Indices: 34612164--34612201 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
34612154 AGCTCACGTG
*
34612164 AGCTCAAGTC
1 AGCTCAATTC
34612174 AGCTC-ATTC
1 AGCTCAATTC
34612183 GAGCTCAATTC
1 -AGCTCAATTC
34612194 AGCTCAAT
1 AGCTCAAT
34612202 CTTAACCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 3 0.12
10 18 0.72
11 4 0.16
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:34614691 original size:7 final size:7
Alignment explanation
Indices: 34614673--34614750 Score: 99
Period size: 7 Copynumber: 11.0 Consensus size: 7
34614663 CTGAGTCAAA
34614673 AAAAATG
1 AAAAATG
34614680 AAAAAATG
1 -AAAAATG
34614688 -AAAATG
1 AAAAATG
34614694 AAAAATG
1 AAAAATG
34614701 AAAAATG
1 AAAAATG
34614708 AAAAAATG
1 -AAAAATG
34614716 -AAAATG
1 AAAAATG
34614722 AAAAATGG
1 AAAAAT-G
34614730 AAAAATG
1 AAAAATG
34614737 AAAAA-G
1 AAAAATG
34614743 TAAAAATG
1 -AAAAATG
34614751 GAGAGGCTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
6 13 0.20
7 29 0.45
8 22 0.34
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:34614704 original size:28 final size:29
Alignment explanation
Indices: 34614673--34614750 Score: 131
Period size: 28 Copynumber: 2.7 Consensus size: 29
34614663 CTGAGTCAAA
34614673 AAAAATGAAAAAATGAAAATGAAAAAT-G
1 AAAAATGAAAAAATGAAAATGAAAAATGG
34614701 AAAAATGAAAAAATGAAAATGAAAAATGG
1 AAAAATGAAAAAATGAAAATGAAAAATGG
* *
34614730 AAAAATGAAAAAGTAAAAATG
1 AAAAATGAAAAAATGAAAATG
34614751 GAGAGGCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 27 0.57
29 20 0.43
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.14
Consensus pattern (29 bp):
AAAAATGAAAAAATGAAAATGAAAAATGG
Found at i:34616202 original size:100 final size:100
Alignment explanation
Indices: 34616019--34616463 Score: 468
Period size: 100 Copynumber: 4.5 Consensus size: 100
34616009 AGGTTGAAAC
* * * * * * *
34616019 CAGCGAATCTTACTTCTCAAGTGGTGTAGTGGAATAGATTAATGCCACAACGGCGAACCTTGCTT
1 CAGCGAATCTTACTTCTCAGGAGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAACCTTGATT
* *
34616084 -CCTCAACATTGCAATTAAAAAGATTAAAGCTACAA
66 CCCT-GACATTGCAGTTAAAAAGATTAAAGCTACAA
* * * ** * *
34616119 CAACGAATCTTACTGCTCAGGCGACGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGATT
1 CAGCGAATCTTACTTCTCAGGAGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAACCTTGATT
* *
34616184 CCCTGACTTTGCAGTTAAAACGATTAAAGCTACAA
66 CCCTGACATTGCAGTTAAAAAGATTAAAGCTACAA
* * * * * * *
34616219 CATCGAATCTTATTTCTCGGGAGGTGCAGTGGAACAGATTCAAGCCACAATGGTCAACCTTGCTT
1 CAGCGAATCTTACTTCTCAGGAGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAACCTTGATT
34616284 CCGC-GACATTGCAGTTAAAAAGATTAAAGCTACAA
66 CC-CTGACATTGCAGTTAAAAAGATTAAAGCTACAA
* * * * * * *
34616319 CAGCGAATATTACTTCTCAAGTGGTGCAGTGGAATAGATTAATGCCACAACAGTGAATCTT-ACT
1 CAGCGAATCTTACTTCTCAGGAGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAACCTTGA-T
*
34616383 TCCCCT-ACATTGTAGTTAAAAAGATTAAAGCTACAA
65 T-CCCTGACATTGCAGTTAAAAAGATTAAAGCTACAA
* * * * *
34616419 TAGCGAATCTTACTTCCCAGGCA-GTGTAGTGGAACCGATTGAAGC
1 CAGCGAATCTTACTTCTCAGG-AGGTGCAGTGGAACAGATTAAAGC
34616464 TACAGTAGGG
Statistics
Matches: 282, Mismatches: 57, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
100 276 0.98
101 6 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (100 bp):
CAGCGAATCTTACTTCTCAGGAGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAACCTTGATT
CCCTGACATTGCAGTTAAAAAGATTAAAGCTACAA
Found at i:34616347 original size:50 final size:49
Alignment explanation
Indices: 34616054--34616436 Score: 184
Period size: 50 Copynumber: 7.7 Consensus size: 49
34616044 GTAGTGGAAT
* * * * * * *
34616054 AGATTAATGCCACAACGGCGAACCTTGCTTCCTCAACATTGCAATTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCC-CTACATTGCAGTTAAAA
* * * * ** *
34616104 AGATTAAAGCTACAACAACGAATCTTACTGCTC-AGGCGA-CGCAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTA--C-ATTGCAGTTAAAA
* * * * *
34616154 AGATTAAAGCCACATCGGTGAATCTTGA-TTCCCTGACTTTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTT-ACTTCCCT-ACATTGCAGTTAAAA
* * * * *** * ** *
34616204 CGATTAAAGCTACAACATCGAATCTTATTTCTCGGGAGGTGCAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTACA-TTGCAGTTAAAA
* * ** * * *
34616254 AGATTCAAGCCACAATGGTC-AACCTTGCTTCCGCGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAG-CGAATCTTACTTCC-CTACATTGCAGTTAAAA
* * ** *
34616304 AGATTAAAGCTACAACAGCGAATATTACTTCTC-A-AGTGGTGCAGTGGAAT
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCTACA-T--TGCAGTTAAAA
* * * *
34616354 AGATTAATGCCACAACAGTGAATCTTACTTCCCCTACATTGTAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTT-CCCTACATTGCAGTTAAAA
*
34616404 AGATTAAAGCTACAATAGCGAATCTTACTTCCC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCC
34616437 AGGCAGTGTA
Statistics
Matches: 235, Mismatches: 80, Indels: 37
0.67 0.23 0.11
Matches are distributed among these distances:
47 1 0.00
48 3 0.01
49 7 0.03
50 212 0.90
51 8 0.03
52 3 0.01
53 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (49 bp):
AGATTAAAGCTACAACAGCGAATCTTACTTCCCTACATTGCAGTTAAAA
Found at i:34616447 original size:50 final size:50
Alignment explanation
Indices: 34616019--34616486 Score: 151
Period size: 50 Copynumber: 9.4 Consensus size: 50
34616009 AGGTTGAAAC
* ** * * * *
34616019 CAGCGAATCTTACTTCTCAAGTGGTGTAGTGGAATAGATTAATGCCACAA
1 CAGCGAATCTTACTTCCCAAGCAGTGTAGTGAAAAAGATTAAAGCTACAA
* * * * * * *
34616069 CGGCGAACCTTGCTTCCTCAA-CATTGCAATTAAAAAGATTAAAGCTACAA
1 CAGCGAATCTTACTTCC-CAAGCAGTGTAGTGAAAAAGATTAAAGCTACAA
* * * * * * * * * *
34616119 CAACGAATCTTACTGCTCAGGC-GACGCAGTGGAACAGATTAAAGCCACAT
1 CAGCGAATCTTACTTCCCAAGCAG-TGTAGTGAAAAAGATTAAAGCTACAA
* * * ** * * *
34616169 CGGTGAATCTTGA-TTCCC-TGACTTTGCAGTTAAAACGATTAAAGCTACAA
1 CAGCGAATCTT-ACTTCCCAAG-CAGTGTAGTGAAAAAGATTAAAGCTACAA
* * * * * * * * * *
34616219 CATCGAATCTTATTTCTC-GGGAGGTGCAGTGGAACAGATTCAAGCCACAA
1 CAGCGAATCTTACTTCCCAAGCA-GTGTAGTGAAAAAGATTAAAGCTACAA
** * * * * * *
34616269 TGGTC-AACCTTGCTTCCGCGA-CATTGCAGTTAAAAAGATTAAAGCTACAA
1 CAG-CGAATCTTACTTCC-CAAGCAGTGTAGTGAAAAAGATTAAAGCTACAA
* * ** * * * * *
34616319 CAGCGAATATTACTTCTCAAGTGGTGCAGTGGAATAGATTAATGCCACAA
1 CAGCGAATCTTACTTCCCAAGCAGTGTAGTGAAAAAGATTAAAGCTACAA
* * * *
34616369 CAGTGAATCTTACTTCCCCTA-CATTGTAGTTAAAAAGATTAAAGCTACAA
1 CAGCGAATCTTACTT-CCCAAGCAGTGTAGTGAAAAAGATTAAAGCTACAA
* * * ** * *
34616419 TAGCGAATCTTACTTCCCAGGCAGTGTAGTGGAACCGATTGAAGCTACAG
1 CAGCGAATCTTACTTCCCAAGCAGTGTAGTGAAAAAGATTAAAGCTACAA
* * *
34616469 TAGGGAATCTTATTTCCC
1 CAGCGAATCTTACTTCCC
34616487 CGACATCATA
Statistics
Matches: 290, Mismatches: 113, Indels: 30
0.67 0.26 0.07
Matches are distributed among these distances:
49 10 0.03
50 270 0.93
51 10 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (50 bp):
CAGCGAATCTTACTTCCCAAGCAGTGTAGTGAAAAAGATTAAAGCTACAA
Found at i:34616452 original size:200 final size:199
Alignment explanation
Indices: 34616019--34616463 Score: 538
Period size: 200 Copynumber: 2.2 Consensus size: 199
34616009 AGGTTGAAAC
* ** *
34616019 CAGCGAATCTTACTTCTCAAGTGGTGTAGTGGAATAGATTAATGCCACAACGGCGAACCTTGCTT
1 CAGCGAATCTTACTTCTCAGGCAGTGTAGTGGAACAGATTAA-GCCACAACGGCGAACCTTGCTT
* * *
34616084 CCTCAACATTGCAATTAAAAAGATTAAAGCTACAACAACGAATCTTACTGCTCAGGCGACGCAGT
65 CCGCAACATTGCAATTAAAAAGATTAAAGCTACAACAACGAATATTACTGCTCAAGCGACGCAGT
* * * *
34616149 GGAACAGATTAAAGCCACATCGGTGAATCTTGATTCCCTGACTTTGCAGTTAAAACGATTAAAGC
130 GGAACAGATTAAAGCCACAACAGTGAATCTTGATTCCCTGACATTGCAGTTAAAAAGATTAAAGC
34616214 TACAA
195 TACAA
* * * * *
34616219 CATCGAATCTTATTTCTC-GGGAGGTGCAGTGGAACAGATTCAAGCCACAATGGTC-AACCTTGC
1 CAGCGAATCTTACTTCTCAGGCA-GTGTAGTGGAACAGATT-AAGCCACAACGG-CGAACCTTGC
* * * * * **
34616282 TTCCGCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATATTACTTCTCAAGTGGTGCA
63 TTCCGCAACATTGCAATTAAAAAGATTAAAGCTACAACAACGAATATTACTGCTCAAGCGACGCA
* * *
34616347 GTGGAATAGATTAATGCCACAACAGTGAATCTT-ACTTCCCCT-ACATTGTAGTTAAAAAGATTA
128 GTGGAACAGATTAAAGCCACAACAGTGAATCTTGA-TT-CCCTGACATTGCAGTTAAAAAGATTA
34616410 AAGCTACAA
191 AAGCTACAA
* * *
34616419 TAGCGAATCTTACTTCCCAGGCAGTGTAGTGGAACCGATTGAAGC
1 CAGCGAATCTTACTTCTCAGGCAGTGTAGTGGAACAGATT-AAGC
34616464 TACAGTAGGG
Statistics
Matches: 206, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
199 2 0.01
200 194 0.94
201 10 0.05
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (199 bp):
CAGCGAATCTTACTTCTCAGGCAGTGTAGTGGAACAGATTAAGCCACAACGGCGAACCTTGCTTC
CGCAACATTGCAATTAAAAAGATTAAAGCTACAACAACGAATATTACTGCTCAAGCGACGCAGTG
GAACAGATTAAAGCCACAACAGTGAATCTTGATTCCCTGACATTGCAGTTAAAAAGATTAAAGCT
ACAA
Found at i:34622419 original size:17 final size:18
Alignment explanation
Indices: 34622397--34622443 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
34622387 ACACGAGAGG
34622397 AGAAAAATGAAAATGAAAA
1 AGAAAAATGAAAA-GAAAA
*
34622416 A-AAAAATTAAAAG-AAA
1 AGAAAAATGAAAAGAAAA
34622432 AGAAAAA-GAAAA
1 AGAAAAATGAAAA
34622444 AAAGAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 10 0.40
19 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.09
Consensus pattern (18 bp):
AGAAAAATGAAAAGAAAA
Found at i:34622444 original size:17 final size:17
Alignment explanation
Indices: 34622397--34622444 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
34622387 ACACGAGAGG
*
34622397 AGAAAAATGAAAATGAAA
1 AGAAAAA-GAAAAAGAAA
* **
34622415 AAAAAAATTAAAAGAAA
1 AGAAAAAGAAAAAGAAA
34622432 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
34622445 AAGAATATGA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.08
Consensus pattern (17 bp):
AGAAAAAGAAAAAGAAA
Found at i:34623748 original size:592 final size:592
Alignment explanation
Indices: 34622624--34623813 Score: 2236
Period size: 592 Copynumber: 2.0 Consensus size: 592
34622614 AAGTGAGGAA
*
34622624 TATTTTTACTAACCCCCGTTTGAGATTGCTTTGTGATTTCTCTTTGTTTCAGGTTTGTAAAATTC
1 TATTTTTACTAACCCCCATTTGAGATTGCTTTGTGATTTCTCTTTGTTTCAGGTTTGTAAAATTC
*
34622689 CACCTAAAGATAAGTTCCAACTTCATTACCTTTCCAACAAACGACGTTTTCGATTAATTGAAAAA
66 CACCTAAAGACAAGTTCCAACTTCATTACCTTTCCAACAAACGACGTTTTCGATTAATTGAAAAA
*
34622754 GGTAAGTTGGATGGTGTGAATACTTTTCAAACTTTTGAAGGTAAGTCAGATGCAATTCTTCCAAT
131 GGTAAGTTGGATGGTGTGAATACTTTTCAAACTTTCGAAGGTAAGTCAGATGCAATTCTTCCAAT
34622819 CCTTCAAGGTAAGCAAGGTAAGGTATCTTTTGAGATTCAATCTGATTGGGACTTGTTGATTTCCA
196 CCTTCAAGGTAAGCAAGGTAAGGTATCTTTTGAGATTCAATCTGATTGGGACTTGTTGATTTCCA
*
34622884 TTGATAAAAGTGCTCATGTTGTTAATCTTAACAAAATTCCTTATAATGCTTTTCCTGGTTGGTAT
261 TTGATAAAAGTGCTCATGTTGTTAATCTTAACAAAATTCCTTATAATGCTTTTCCTGGTTGCTAT
34622949 AAGTTGAATCAATTTACTGATTTTGATCTGATTAGTGTCTTGGAATGTTCTTCTCATCATTTGTT
326 AAGTTGAATCAATTTACTGATTTTGATCTGATTAGTGTCTTGGAATGTTCTTCTCATCATTTGTT
*
34623014 CAATATTGATTCAAATAATCTCGAGTTGCAAGTTGACTTGGTTGTTGATGACATTGCTCCGACTT
391 CAATATTGATTCAAATAACCTCGAGTTGCAAGTTGACTTGGTTGTTGATGACATTGCTCCGACTT
34623079 TAAGTTAGCAAAACATGATTGTTGTATGTGATAAAATGTATTCATGTAAAATGCTTAATCTGATT
456 TAAGTTAGCAAAACATGATTGTTGTATGTGATAAAATGTATTCATGTAAAATGCTTAATCTGATT
*
34623144 GGTTTTGATTGCTACATGAATTCTTTCAATCAATGCGATGAAATTTTGTGGATATCTTCGTATGT
521 GGTTTTGATTGCTACATGAATTCTTTCAATCAATGCGATGAAATTTTATGGATATCTTCGTATGT
34623209 TCAAAGG
586 TCAAAGG
*
34623216 TATTTTTGCTAACCCCCATTTGAGATTGCTTTGTGATTTCTCTTTGTTTCAGGTTTGTAAAATTC
1 TATTTTTACTAACCCCCATTTGAGATTGCTTTGTGATTTCTCTTTGTTTCAGGTTTGTAAAATTC
* * *
34623281 CACCTAAAGACAAGTTCCAACTTCATTACCTTTCCGACAAATGATGTTTTCGATTAATTGAAAAA
66 CACCTAAAGACAAGTTCCAACTTCATTACCTTTCCAACAAACGACGTTTTCGATTAATTGAAAAA
*
34623346 GGTAAGTTGGATGGTGTGAATACTTTTCAAACTTTCGAAGGTAAGTCAGATGCAATTCTTCTAAT
131 GGTAAGTTGGATGGTGTGAATACTTTTCAAACTTTCGAAGGTAAGTCAGATGCAATTCTTCCAAT
34623411 CCTTCAAGGTAAGCAAGGTAAGGTATCTTTTGAGATTCAATCTGATTGGGACTTGTTGATTTCCA
196 CCTTCAAGGTAAGCAAGGTAAGGTATCTTTTGAGATTCAATCTGATTGGGACTTGTTGATTTCCA
*
34623476 TTGATAAAAGTGCTCATGTTGTTAATCTTAACGAAATTCCTTATAATGCTTTTCCTGGTTGCTAT
261 TTGATAAAAGTGCTCATGTTGTTAATCTTAACAAAATTCCTTATAATGCTTTTCCTGGTTGCTAT
*
34623541 AAGTTGAATCGATTTACTGATTTTGATCTGATTAGTGTCTTGGAATGTTCTTCTCATCATTTGTT
326 AAGTTGAATCAATTTACTGATTTTGATCTGATTAGTGTCTTGGAATGTTCTTCTCATCATTTGTT
* *
34623606 CCATATTGATTCAAATAACCTCGAGTTGCAAGTTGATTTGGTTGTTGATGACATTGCTCCGACTT
391 CAATATTGATTCAAATAACCTCGAGTTGCAAGTTGACTTGGTTGTTGATGACATTGCTCCGACTT
34623671 TAAGTTAGCAAAACATGATTGTTGTATGTGATAAAATGTATTCATGTAAAATGCTTAATCTGATT
456 TAAGTTAGCAAAACATGATTGTTGTATGTGATAAAATGTATTCATGTAAAATGCTTAATCTGATT
*
34623736 GGTTTTGATTGCTACATGAATTCTTTCAATCAATGCGATGAAATTTTATGGATATCTTTGTATGT
521 GGTTTTGATTGCTACATGAATTCTTTCAATCAATGCGATGAAATTTTATGGATATCTTCGTATGT
34623801 TCAAAGG
586 TCAAAGG
34623808 TATTTT
1 TATTTT
34623814 GAAAGATATG
Statistics
Matches: 582, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
592 582 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (592 bp):
TATTTTTACTAACCCCCATTTGAGATTGCTTTGTGATTTCTCTTTGTTTCAGGTTTGTAAAATTC
CACCTAAAGACAAGTTCCAACTTCATTACCTTTCCAACAAACGACGTTTTCGATTAATTGAAAAA
GGTAAGTTGGATGGTGTGAATACTTTTCAAACTTTCGAAGGTAAGTCAGATGCAATTCTTCCAAT
CCTTCAAGGTAAGCAAGGTAAGGTATCTTTTGAGATTCAATCTGATTGGGACTTGTTGATTTCCA
TTGATAAAAGTGCTCATGTTGTTAATCTTAACAAAATTCCTTATAATGCTTTTCCTGGTTGCTAT
AAGTTGAATCAATTTACTGATTTTGATCTGATTAGTGTCTTGGAATGTTCTTCTCATCATTTGTT
CAATATTGATTCAAATAACCTCGAGTTGCAAGTTGACTTGGTTGTTGATGACATTGCTCCGACTT
TAAGTTAGCAAAACATGATTGTTGTATGTGATAAAATGTATTCATGTAAAATGCTTAATCTGATT
GGTTTTGATTGCTACATGAATTCTTTCAATCAATGCGATGAAATTTTATGGATATCTTCGTATGT
TCAAAGG
Found at i:34625203 original size:30 final size:32
Alignment explanation
Indices: 34625168--34625252 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
34625158 ATAATATGAG
*
34625168 TCTTTAATTATGTCTTG-TTTATTAAAC-ACA
1 TCTTTAATTATGTCTTGCATTATTAAACTACA
* *
34625198 TCTTTAATTAATGTCTTGCATTATTGATCTACA
1 TCTTTAATT-ATGTCTTGCATTATTAAACTACA
*
34625231 TCTTTTAATTATGTCATGCATT
1 TC-TTTAATTATGTCTTGCATT
34625253 TTGTGTTCTG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.19
31 8 0.17
32 7 0.15
33 16 0.34
34 7 0.15
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (32 bp):
TCTTTAATTATGTCTTGCATTATTAAACTACA
Found at i:34631545 original size:16 final size:16
Alignment explanation
Indices: 34631526--34631559 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
34631516 AATTATGTCC
34631526 TAATTAAGT-ACTTAAT
1 TAATTAAGTGA-TTAAT
34631542 TAATTAAGTGATTAAT
1 TAATTAAGTGATTAAT
34631558 TA
1 TA
34631560 TGTCCTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (16 bp):
TAATTAAGTGATTAAT
Found at i:34636446 original size:19 final size:19
Alignment explanation
Indices: 34636422--34636471 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
34636412 ACAAGTGACT
34636422 CGACTCTACATCATCGAGC
1 CGACTCTACATCATCGAGC
34636441 CGACTCTACATCATCGAGC
1 CGACTCTACATCATCGAGC
*
34636460 TGACTC-ACATCA
1 CGACTCTACATCA
34636472 AGAAGGAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.28, C:0.36, G:0.14, T:0.22
Consensus pattern (19 bp):
CGACTCTACATCATCGAGC
Found at i:34637715 original size:12 final size:13
Alignment explanation
Indices: 34637688--34637712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34637678 CTTCACTATC
34637688 TTTGTTTTCAAAA
1 TTTGTTTTCAAAA
34637701 TTTGTTTTCAAA
1 TTTGTTTTCAAA
34637713 TTTTTTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTGTTTTCAAAA
Found at i:34637739 original size:17 final size:17
Alignment explanation
Indices: 34637706--34637752 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
34637696 CAAAATTTGT
34637706 TTTCAAA-TTTTTTTAA
1 TTTCAAATTTTTTTTAA
*
34637722 TTTC-GATTTTTTTATAA
1 TTTCAAATTTTTTT-TAA
34637739 TTTCAAATTTTTTT
1 TTTCAAATTTTTTT
34637753 CTTATACCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 1 0.04
16 10 0.38
17 7 0.27
18 8 0.31
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTCAAATTTTTTTTAA
Found at i:34641838 original size:21 final size:21
Alignment explanation
Indices: 34641751--34641838 Score: 51
Period size: 21 Copynumber: 4.3 Consensus size: 21
34641741 TAAAACAAGT
*
34641751 GAGGAAAAAGAAAAATGA-GAA
1 GAGGAAAATGAAAAA-GATGAA
*
34641772 GAGAAAAAT--AAAAG-TGAA
1 GAGGAAAATGAAAAAGATGAA
* * * *
34641790 AAAGAAATTGAAAGAA-AAGAA
1 GAGGAAAATGAAA-AAGATGAA
* *
34641811 AATGAAAATGAAAAAGATGAA
1 GAGGAAAATGAAAAAGATGAA
34641832 GAGGAAA
1 GAGGAAA
34641839 GCGAGAGAGA
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
18 9 0.18
19 4 0.08
20 4 0.08
21 32 0.65
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (21 bp):
GAGGAAAATGAAAAAGATGAA
Found at i:34641917 original size:16 final size:16
Alignment explanation
Indices: 34641873--34641924 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
34641863 TGAATGAAGT
34641873 GAGTGAAAAAGAAAGA
1 GAGTGAAAAAGAAAGA
34641889 GAGCTTG-AAAAGAAA-A
1 GAG--TGAAAAAGAAAGA
*
34641905 CGAGTGAAAAAGAGAGA
1 -GAGTGAAAAAGAAAGA
34641922 GAG
1 GAG
34641925 CTTCAACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
15 2 0.07
16 14 0.47
17 12 0.40
18 2 0.07
ACGTcount: A:0.56, C:0.04, G:0.33, T:0.08
Consensus pattern (16 bp):
GAGTGAAAAAGAAAGA
Found at i:34641944 original size:33 final size:31
Alignment explanation
Indices: 34641874--34641956 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 31
34641864 GAATGAAGTG
* *
34641874 AGTGAAAAAGAAAGAGAGCTTGAAAAGAAAACG
1 AGTGAAAAAG-AAGAGAGCTTCAAAAG-AAACA
34641907 AGTGAAAAAGAGAGAGAGCTTCAACAATG-AACA
1 AGTGAAAAAGA-AGAGAGCTTCAA-AA-GAAACA
*
34641940 AGTGAAGAAGAAGAGAG
1 AGTGAAAAAGAAGAGAG
34641957 TGCTCAAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 7 0.16
33 34 0.77
34 2 0.05
35 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.29, T:0.10
Consensus pattern (31 bp):
AGTGAAAAAGAAGAGAGCTTCAAAAGAAACA
Found at i:34644780 original size:45 final size:45
Alignment explanation
Indices: 34644731--34644963 Score: 412
Period size: 45 Copynumber: 5.2 Consensus size: 45
34644721 TCGGCCATGG
* * * *
34644731 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
34644776 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
34644821 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
34644866 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
34644911 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
34644956 TGCTTCCT
1 TGCTTCCT
34644964 TAATTTCATG
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 181 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:34648002 original size:46 final size:46
Alignment explanation
Indices: 34647950--34648039 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
34647940 TGTGGCGTTC
*
34647950 ATCATATACCAAGGTTCTTATCA-TCATTGATAGTGGGTCGAGGTTT
1 ATCATATACCAAGGTTCCTATCATTC-TTGATAGTGGGTCGAGGTTT
34647996 ATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGT
1 ATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGT
34648040 CTTTTCTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 40 0.95
47 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (46 bp):
ATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGTTT
Found at i:34653586 original size:45 final size:45
Alignment explanation
Indices: 34653537--34653679 Score: 232
Period size: 45 Copynumber: 3.2 Consensus size: 45
34653527 TCGGCCATGG
* * * *
34653537 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
34653582 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
34653627 TGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
34653672 TGCTTCCT
1 TGCTTCCT
34653680 TAATTTCATG
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:34666219 original size:20 final size:20
Alignment explanation
Indices: 34666196--34666249 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
34666186 AGTTTTTCCC
*
34666196 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
34666216 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
34666236 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
34666250 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:34666231 original size:30 final size:30
Alignment explanation
Indices: 34666196--34666269 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
34666186 AGTTTTTCCC
34666196 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
34666226 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
34666256 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
34666270 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:34666259 original size:20 final size:20
Alignment explanation
Indices: 34666196--34666260 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
34666186 AGTTTTTCCC
* * * *
34666196 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
34666216 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
34666235 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
34666256 AGCTC
1 AGCTC
34666261 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:34667891 original size:10 final size:11
Alignment explanation
Indices: 34667869--34667894 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34667859 AAAAGAGAAG
34667869 AAATTCAAAAA
1 AAATTCAAAAA
34667880 AAATTCAAAAA
1 AAATTCAAAAA
34667891 AAAT
1 AAAT
34667895 CGTAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:34668998 original size:6 final size:6
Alignment explanation
Indices: 34668975--34669081 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
34668965 AAAGAAATTG
* * ** *
34668975 AAAG-A AAACAA AAAGAA AATGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* ** * * *
34669022 AAAGAA ATA-AA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
34669072 AAAGAA AAAG
1 AAAGAA AAAG
34669082 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 22, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
5 7 0.09
6 57 0.76
7 7 0.09
8 4 0.05
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:34669005 original size:12 final size:12
Alignment explanation
Indices: 34668961--34669079 Score: 79
Period size: 12 Copynumber: 10.0 Consensus size: 12
34668951 AGAAAGAGAT
*
34668961 TGAAAAAGAAAT
1 TGAAAAAGAAAA
34668973 TG--AAAGAAAA
1 TGAAAAAGAAAA
*
34668983 -CAAAAAGAAAA
1 TGAAAAAGAAAA
34668994 TGAAAAAGAAAA
1 TGAAAAAGAAAA
* **
34669006 AGAAATTGCAAAA
1 TGAAAAAG-AAAA
34669019 -GAAAAAG-AAA
1 TGAAAAAGAAAA
* * *
34669029 TAAAAAAGTGAGA
1 TGAAAAAG-AAAA
34669042 -GAAAAAGAAAA
1 TGAAAAAGAAAA
34669053 TGAAGAAAAGAAAA
1 TG-A-AAAAGAAAA
34669067 TTGAAAAAGAAAA
1 -TGAAAAAGAAAA
34669080 AGCGAAAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
10 10 0.12
11 16 0.19
12 29 0.35
13 16 0.19
14 10 0.12
15 2 0.02
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (12 bp):
TGAAAAAGAAAA
Found at i:34669005 original size:18 final size:18
Alignment explanation
Indices: 34668979--34669081 Score: 91
Period size: 18 Copynumber: 5.6 Consensus size: 18
34668969 AAATTGAAAG
*
34668979 AAAACAAAAAGAAAATGA
1 AAAAGAAAAAGAAAATGA
* *
34668997 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAAATGA
*
34669015 AAAAGAAAAAG-AAATAA
1 AAAAGAAAAAGAAAATGA
** * *
34669032 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAAATGA
*
34669050 AAATGAAGAAAAGAAAATTGA
1 AAAAG-A-AAAAGAAAA-TGA
34669071 AAAAGAAAAAG
1 AAAAGAAAAAG
34669082 CGAAAAAAGA
Statistics
Matches: 64, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
17 11 0.17
18 34 0.53
19 5 0.08
20 8 0.12
21 6 0.09
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Done.