Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 8 of 345
Found at i:2585269 original size:26 final size:26
Alignment explanation
Indices: 2585238--2585322 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 26
2585228 ATTTTTTAAA
2585238 TATCAATTTAGATTTACTAATAATAT
1 TATCAATTTAGATTTACTAATAATAT
* *
2585264 TATCAATTTA-ACTATAGTAATTAAAGATAT
1 TATCAATTTAGA-TTTACTAA-T--A-ATAT
* * *
2585294 TATCAATTTGGACTTATTAATAATAT
1 TATCAATTTAGATTTACTAATAATAT
2585320 TAT
1 TAT
2585323 AAAATTATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
25 1 0.02
26 23 0.49
27 2 0.04
29 2 0.04
30 18 0.38
31 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (26 bp):
TATCAATTTAGATTTACTAATAATAT
Found at i:2594621 original size:139 final size:139
Alignment explanation
Indices: 2594362--2594635 Score: 392
Period size: 139 Copynumber: 2.0 Consensus size: 139
2594352 GTCCTATAAA
* * * *
2594362 GGAAATGCCTCCCATGACTAAGAAGGGAAAGAAAGCTAAATCTGTGAAGAAGGCTCGGAAAGTGA
1 GGAAATGCCTCCAATGACTAAGAAGGGAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGTGA
* * * *
2594427 TAAAGAGTATGTATCCTCTAGTCAAACGCACAAAGAAATTGAAATCTACTTCCTCTTAGCAGAGT
66 TAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACTCCCTCTTAGCAGAGT
2594492 CTGCTCAAG
131 CTGCTCAAG
*
2594501 GGAAATGCCTCCAATGTA-TAAGATGGTG-AAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGT
1 GGAAATGCCTCCAATG-ACTAAGAAGG-GAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGT
* * *
2594564 GATAAAGAATGTGTATCCTCTAGTCATACGAACGAAGAAATTGAAATCCA-TGCCCTCTTAGCAG
64 GATAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACT-CCCTCTTAGCAG
2594628 AGTCTGCT
128 AGTCTGCT
2594636 TTGTGAGTTT
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
138 1 0.01
139 117 0.98
140 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (139 bp):
GGAAATGCCTCCAATGACTAAGAAGGGAAAGAAAACTAAATCTGGGAAGAAGGCTCAGAAAGTGA
TAAAGAATATGTATCCTCTAGTCAAACGAACAAAGAAATTGAAATCCACTCCCTCTTAGCAGAGT
CTGCTCAAG
Found at i:2597473 original size:2 final size:2
Alignment explanation
Indices: 2597466--2597493 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2597456 GGAGACCGAA
2597466 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2597494 ACAATTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2602204 original size:45 final size:44
Alignment explanation
Indices: 2602140--2602230 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 44
2602130 TAATCAACAA
* *
2602140 ACAATGACTATATTGACCGGTTTAATTGTTTTTTTTCAAATTCAT
1 ACAATGACTATATTGACCGGTTTAATAGTATTTTTT-AAATTCAT
2602185 ACAATGACTATATTGACCGGTTTAATAGTATTTTTTAAATTCAT
1 ACAATGACTATATTGACCGGTTTAATAGTATTTTTTAAATTCAT
2602229 AC
1 AC
2602231 TTTTATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 10 0.23
45 34 0.77
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (44 bp):
ACAATGACTATATTGACCGGTTTAATAGTATTTTTTAAATTCAT
Found at i:2607845 original size:2 final size:2
Alignment explanation
Indices: 2607838--2607867 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2607828 AACATTCCTT
2607838 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2607868 TGTATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2613480 original size:20 final size:19
Alignment explanation
Indices: 2613457--2613516 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
2613447 TTAAATTCTA
2613457 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
** *
2613477 AAAGATATTTAAAGATAATT
1 AAAGATAAATAAA-ATAAAT
2613497 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
2613517 CATAAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.06
20 27 0.84
21 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:2613489 original size:10 final size:10
Alignment explanation
Indices: 2613457--2613504 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
2613447 TTAAATTCTA
*
2613457 AAAGATAAAT
1 AAAGATAATT
*
2613467 ACAA-ATAAAT
1 A-AAGATAATT
*
2613477 AAAGATATTT
1 AAAGATAATT
2613487 AAAGATAATT
1 AAAGATAATT
2613497 AAAGATAA
1 AAAGATAA
2613505 ATGAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAATT
Found at i:2616178 original size:35 final size:35
Alignment explanation
Indices: 2616101--2616226 Score: 103
Period size: 35 Copynumber: 3.6 Consensus size: 35
2616091 ACCTATAGTT
* * ** * **
2616101 CAAATTCAATAGAACATCACATATAGCCGGATATG
1 CAAATTCAATATAACCTCACATATAATCGAATACA
* *
2616136 CACATTCAAGT-TAACCTCACATATGA-CTGAATACA
1 CAAATTCAA-TATAACCTCACATATAATC-GAATACA
* * **
2616171 CAAATTCAATATAAACTCACATGTAATCGAATATT
1 CAAATTCAATATAACCTCACATATAATCGAATACA
2616206 CAAATTCAATATAACCTCACA
1 CAAATTCAATATAACCTCACA
2616227 AGCAGCCTAA
Statistics
Matches: 72, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
34 2 0.03
35 68 0.94
36 2 0.03
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (35 bp):
CAAATTCAATATAACCTCACATATAATCGAATACA
Found at i:2616239 original size:35 final size:35
Alignment explanation
Indices: 2616164--2616254 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
2616154 ACATATGACT
* * * *
2616164 GAATACACAAATTCAATATAAACTCACATGTAATC
1 GAATATACAAATTCAATATAAACTCACAAGCAACC
* * *
2616199 GAATATTCAAATTCAATATAACCTCACAAGCAGCC
1 GAATATACAAATTCAATATAAACTCACAAGCAACC
* *
2616234 TAATATACAAGTTCAATATAA
1 GAATATACAAATTCAATATAA
2616255 GCTTACATGT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.26
Consensus pattern (35 bp):
GAATATACAAATTCAATATAAACTCACAAGCAACC
Found at i:2618042 original size:20 final size:19
Alignment explanation
Indices: 2618000--2618042 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
2617990 AATATGGGGT
*
2618000 CAAACATGGAGTCAAATTA
1 CAAACATGGAGTCAAACTA
2618019 CAAATCATGG-GTCAAACTA
1 CAAA-CATGGAGTCAAACTA
2618038 GCAAA
1 -CAAA
2618043 AAGCAAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (19 bp):
CAAACATGGAGTCAAACTA
Found at i:2619549 original size:16 final size:16
Alignment explanation
Indices: 2619528--2619569 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2619518 AAAATCAAAA
2619528 TTTTTATAATATCTAT
1 TTTTTATAATATCTAT
* *
2619544 TTTTTATAATATTTGT
1 TTTTTATAATATCTAT
*
2619560 TTTTTTTAAT
1 TTTTTATAAT
2619570 TTTCATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTATAATATCTAT
Found at i:2620244 original size:58 final size:54
Alignment explanation
Indices: 2620195--2620325 Score: 156
Period size: 58 Copynumber: 2.4 Consensus size: 54
2620185 AGATGAAGAA
* *
2620195 TTTTCATCATCTTTCCCA-TGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAG
1 TTTTCAT-ATCTTTACAATTGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAG
* *
2620249 TTTTGATTTCTTTACAATTTGGTGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAG
1 TTTTCATATCTTTACAA--T--TGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAG
* *
2620307 TTTTGATTTCTTTACAATT
1 TTTTCATATCTTTACAATT
2620326 TGGTCCTTCT
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
53 7 0.10
54 7 0.10
56 1 0.01
58 53 0.78
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (54 bp):
TTTTCATATCTTTACAATTGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAG
Found at i:2620326 original size:58 final size:58
Alignment explanation
Indices: 2620213--2620329 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
2620203 ATCTTTCCCA
2620213 TGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAGTTTTGATTTCTTTACAATTTGG
1 TGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAGTTTTGATTTCTTTACAATTTGG
2620271 TGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAGTTTTGATTTCTTTACAATTTGG
1 TGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAGTTTTGATTTCTTTACAATTTGG
2620329 T
1 T
2620330 CCTTCTACCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (58 bp):
TGCACTAACATGAGAGGAAGAGAGAAAGAAAGAAAGTTTTGATTTCTTTACAATTTGG
Found at i:2621749 original size:46 final size:46
Alignment explanation
Indices: 2621677--2621893 Score: 301
Period size: 46 Copynumber: 4.7 Consensus size: 46
2621667 AGTGTGCTTT
* * *
2621677 ATGAAATGAAATGTGTAAGTCCATGGTTGAAAGATACCATGGCAAC
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
2621723 ATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAAC
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
2621769 GTGACATGAAATGAACAAGACCATGGTTG-AAGATACCATGGCAAC
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
** *
2621814 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
2621860 ATGACAGGAAATGAGTAAGACCATAGTTGAAAGA
1 ATGACATGAAATGAGTAAGACCATGGTTGAAAGA
2621894 CAATATGGCA
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 40 0.26
46 114 0.74
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:2621838 original size:91 final size:91
Alignment explanation
Indices: 2621697--2621890 Score: 280
Period size: 91 Copynumber: 2.1 Consensus size: 91
2621687 ATGTGTAAGT
* * **
2621697 CCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCA
1 CCATGGTTG-AAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCA
* * *
2621762 TGGTAACGTGACATGAAATGAACAAGA
65 TGGCAACATGACAGGAAATGAACAAGA
*
2621789 CCATGGTTGAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCAT
1 CCATGGTTGAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCAT
**
2621854 GGCAACATGACAGGAAATGAGTAAGA
66 GGCAACATGACAGGAAATGAACAAGA
*
2621880 CCATAGTTGAA
1 CCATGGTTGAA
2621891 AGACAATATG
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 82 0.90
92 9 0.10
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (91 bp):
CCATGGTTGAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACCAT
GGCAACATGACAGGAAATGAACAAGA
Found at i:2621922 original size:91 final size:90
Alignment explanation
Indices: 2621738--2621926 Score: 227
Period size: 91 Copynumber: 2.1 Consensus size: 90
2621728 ATGAAATGTG
* * * * *
2621738 TAAGACCATGGTTGAAAGATACCATGGTAACGTGACATGAAATGAACAAGACCATGGTTGAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAGAC
* * *
2621803 ACCATGGCAACATGACGGGAAATGAA
66 AACATGGCAACATGAC-GAAAATAAA
**
2621829 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTG-AAGA
* * *
2621894 CAATATGGCATCATGTC-AAAGATAAA
65 CAACATGGCAACATGACGAAA-ATAAA
2621920 TAAGACC
1 TAAGACC
2621927 GTGGATGGGA
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
90 2 0.02
91 65 0.78
92 16 0.19
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (90 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAGAC
AACATGGCAACATGACGAAAATAAA
Found at i:2622677 original size:3 final size:3
Alignment explanation
Indices: 2622664--2622715 Score: 79
Period size: 3 Copynumber: 17.3 Consensus size: 3
2622654 TTTGGTGGTT
*
2622664 GAA GAA AAA GAA GAA GGAA -AA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2622709 GAA GAA G
1 GAA GAA G
2622716 GTGATGGACT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2626340 original size:112 final size:113
Alignment explanation
Indices: 2626142--2626365 Score: 351
Period size: 112 Copynumber: 2.0 Consensus size: 113
2626132 TATTCTGTTA
* * * *
2626142 AATTAGGGTTACATGTGACTGTGGATTTGGGGGAATTTTTTAAATTTCTGCTGGGTTTAAGGTTT
1 AATTAGGGTTACAGGTGACCGTCGATTTGGGGGAATTTTTTAAATTTCTGCTAGGTTTAAGGTTT
*
2626207 CTAAGTCTCTTTATTTTCAATTCCAGTGGTATAATACTTCTAGGGTTG
66 CTAAGACTCTTTATTTTCAATTCCAGTGGTATAATACTTCTAGGGTTG
* * *
2626255 AATTAGGGTTACAGGTGACCGTCGATTT-GGGGAATTTTTTTAATTTCTGTTAGGTTTAGGGTTT
1 AATTAGGGTTACAGGTGACCGTCGATTTGGGGGAATTTTTTAAATTTCTGCTAGGTTTAAGGTTT
* *
2626319 CTAAGACTCTTTGTTTTCAATTCCAGTGGTATAATATTTCTAGGGTT
66 CTAAGACTCTTTATTTTCAATTCCAGTGGTATAATACTTCTAGGGTT
2626366 TTAGAGCTGT
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
112 76 0.75
113 25 0.25
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.44
Consensus pattern (113 bp):
AATTAGGGTTACAGGTGACCGTCGATTTGGGGGAATTTTTTAAATTTCTGCTAGGTTTAAGGTTT
CTAAGACTCTTTATTTTCAATTCCAGTGGTATAATACTTCTAGGGTTG
Found at i:2631585 original size:135 final size:134
Alignment explanation
Indices: 2631327--2631612 Score: 400
Period size: 135 Copynumber: 2.1 Consensus size: 134
2631317 TCTCCTTTCA
* * * * * * *
2631327 AAGCTTTTTTTTATTGCCTTAGAATTTTTATGTTTGTCATGTTATTTATGACTTTCTGGTCTAGT
1 AAGCTTTTCTTTATTGCCTTAGAATTTATATGTTTATCATATTAGTTATGACTTGCTGATCTAGT
* * *
2631392 GATCCTCATATAATTTTTTATCATAGCCTGGATTGTTAATCATACTCCTTCATTAAAGTATACTT
66 GATCCTCATATAATTTTTTATCATAGCCAGGATTGTTAATCATACTCCTTCATCAAAGTATACCT
2631457 TTTG
131 TTTG
2631461 AAGCATTTTCTTTATTGCCTTAGAATTTATATGTTCTATCATATT-GTT-TGACTTGCTGATCTA
1 AAGC-TTTTCTTTATTGCCTTAGAATTTATATGTT-TATCATATTAGTTATGACTTGCTGATCTA
2631524 GTG-TACCTCATATAATTTTTTTATCATAGCCAGGATTGTTAATCATACT-CTGTCATCAAAGTA
64 GTGAT-CCTCATATAA-TTTTTTATCATAGCCAGGATTGTTAATCATACTCCT-TCATCAAAGTA
2631587 TACCTTTTG
126 TACCTTTTG
2631596 AAGCTTTTTCTTTATTG
1 AAGC-TTTTCTTTATTG
2631613 ACTCCTTTCG
Statistics
Matches: 136, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
133 1 0.01
134 32 0.24
135 96 0.71
136 7 0.05
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (134 bp):
AAGCTTTTCTTTATTGCCTTAGAATTTATATGTTTATCATATTAGTTATGACTTGCTGATCTAGT
GATCCTCATATAATTTTTTATCATAGCCAGGATTGTTAATCATACTCCTTCATCAAAGTATACCT
TTTG
Found at i:2637320 original size:55 final size:55
Alignment explanation
Indices: 2637254--2637361 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
2637244 ATTTTAACCT
2637254 CACTCTTTATTTAAAAATTTGACTCAAAATTTAATATAACTATCGAATACAAAAA
1 CACTCTTTATTTAAAAATTTGACTCAAAATTTAATATAACTATCGAATACAAAAA
* *
2637309 CACTCTTTATTTAGAAATTTGACTCGAAATTTAATATAACTATCGAATACAAA
1 CACTCTTTATTTAAAAATTTGACTCAAAATTTAATATAACTATCGAATACAAA
2637362 TAGATATAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (55 bp):
CACTCTTTATTTAAAAATTTGACTCAAAATTTAATATAACTATCGAATACAAAAA
Found at i:2644665 original size:14 final size:14
Alignment explanation
Indices: 2644648--2644677 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2644638 AAGCATAATA
2644648 TACTTACTCTGTTT
1 TACTTACTCTGTTT
*
2644662 TACTTCCTCTGTTT
1 TACTTACTCTGTTT
2644676 TA
1 TA
2644678 TAGTACTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.07, T:0.57
Consensus pattern (14 bp):
TACTTACTCTGTTT
Found at i:2646801 original size:30 final size:32
Alignment explanation
Indices: 2646746--2646804 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
2646736 CTAGTTGTAC
*
2646746 TAAAACCGTAAAGCAGTTAAAAGTCCAAAGTT
1 TAAAACCGTAAAGCAGTCAAAAGTCCAAAGTT
*
2646778 TAAAACCG-AAA-CAGTCCAAAGTCCAAA
1 TAAAACCGTAAAGCAGTCAAAAGTCCAAA
2646805 AATTTACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.56
31 3 0.12
32 8 0.32
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (32 bp):
TAAAACCGTAAAGCAGTCAAAAGTCCAAAGTT
Found at i:2672318 original size:21 final size:21
Alignment explanation
Indices: 2672293--2672341 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2672283 CTCTATTTGT
*
2672293 AATTGTAATCCTATAAAAAAA
1 AATTGTAATCCTAAAAAAAAA
* *
2672314 TATTGT-ATGCTAAAAAAAAA
1 AATTGTAATCCTAAAAAAAAA
2672334 AATT-TAAT
1 AATTGTAAT
2672342 TCTTGATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 17 0.74
21 5 0.22
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTGTAATCCTAAAAAAAAA
Found at i:2678800 original size:23 final size:22
Alignment explanation
Indices: 2678773--2678865 Score: 68
Period size: 22 Copynumber: 4.1 Consensus size: 22
2678763 ATAAATAGTA
2678773 ATAGTGTTAGAAATATACTATAT
1 ATAGTGTTAGAAATATA-TATAT
* *
2678796 ATAGTGTTTGAAGTATATATAT
1 ATAGTGTTAGAAATATATATAT
*
2678818 A-AGATAG-TAAAAATATATA-ACT
1 ATAG-T-GTTAGAAATATATATA-T
*
2678840 AGTAATGTTA-AAATATATATAAT
1 A-TAGTGTTAGAAATATATAT-AT
2678863 ATA
1 ATA
2678866 TACATATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
21 3 0.05
22 30 0.54
23 21 0.38
24 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (22 bp):
ATAGTGTTAGAAATATATATAT
Found at i:2678891 original size:19 final size:21
Alignment explanation
Indices: 2678852--2678891 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2678842 TAATGTTAAA
*
2678852 ATATATATAATATATACATAT
1 ATATATATAATATATAAATAT
2678873 ATATATATAA-A-ATAAATAT
1 ATATATATAATATATAAATAT
2678892 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATATAATATATAAATAT
Found at i:2680580 original size:73 final size:74
Alignment explanation
Indices: 2680490--2681695 Score: 773
Period size: 72 Copynumber: 16.0 Consensus size: 74
2680480 AATTGGAAAG
* *
2680490 CAGAAATTGAAAATACCTCAGCGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
2680554 TTTGAAAAA
66 TTTGAAAAA
* *
2680563 CAGAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
*
2680626 TTTTGAAAGA
65 TTTTGAAAAA
* * * * **
2680636 CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGACTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
2680701 TTTTG-AAAA
65 TTTTGAAAAA
* * * * ** *
2680710 CAGAAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
2680774 TTTG--AAA
66 TTTGAAAAA
* * ** * *** * * *
2680781 CATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCATGCCCCAAGGCTCAACTCACCTCTCGT
1 CAGAAATT--GAAA-ATACCTCAGCGTGT-CCT--G-A-GGCTCAA----C---TCACCTCTCGC
* *
2680845 ATTATGAGTTGATTTTTTTTTTGAAAGA
51 AATATGAGTTGA----TTTTTTGAAAAA
* * * *
2680873 TAAAAATTGAAAATACCTCAACATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 CAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
2680937 -TTTTTG-AAAA
63 TTTTTTGAAAAA
* * * * *
2680947 CATAAATTGAAATTACTTTAAG-GCGTCCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATT
1 CAGAAATTGAAAATAC-CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
*
2681009 TTTTTGAAAGA
64 TTTTTGAAAAA
* * * **
2681020 CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
2681085 TTTTG-AAAA
65 TTTTGAAAAA
* * * * ** *
2681094 CAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
2681158 TTTG--AAA
66 TTTGAAAAA
* * ** * *** * *
2681165 CATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGC
1 CAGAAATT--GAAA-ATACCTCAGCGTGT-CCT--GAG-G-CTCAA----C---TCACCTCTCGC
* * * *
2681229 ATTATGAGTTGATTTTTTTTTAGAGA
51 AATATGAGTTGA--TTTTTTGAAAAA
* * *
2681255 TAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAATTGA
1 CAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
2681319 -TTTTTG-AAAA
63 TTTTTTGAAAAA
* * * * * * *
2681329 CATAAATTTAAAATACCTCAACGTGTCTTGAGGTTCAACTCA-TTACTCGCAATATGAGTTGA-A
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATT
2681392 TTTTG-AAAA
65 TTTTGAAAAA
* * *
2681401 CAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
2681466 TTTTTTTTGAAAAA
63 --TTTTTTGAAAAA
* * ** * *
2681480 CAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA-AT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
2681544 TTTG-AAAA
66 TTTGAAAAA
* * * * ** *
2681552 CAGAAATTGAAATTATCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
1 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
2681616 TTTG-AAAA
66 TTTGAAAAA
* * * * * * ** * * *
2681624 TAGAAA-TAAAAATTACCTCAACGTGTCTTAAGGTTCAACTCATTTCTCGTAATATAAGTTGA-A
1 CAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
2681687 TTTTGAAAA
65 TTTTGAAAA
2681696 TAGAAATAAA
Statistics
Matches: 901, Mismatches: 158, Indels: 148
0.75 0.13 0.12
Matches are distributed among these distances:
70 9 0.01
71 38 0.04
72 261 0.29
73 159 0.18
74 166 0.18
75 46 0.05
76 3 0.00
77 2 0.00
78 35 0.04
79 58 0.06
80 21 0.02
81 1 0.00
82 2 0.00
83 1 0.00
85 43 0.05
86 1 0.00
87 10 0.01
88 11 0.01
89 4 0.00
90 20 0.02
92 10 0.01
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (74 bp):
CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTGAAAAA
Found at i:2681067 original size:384 final size:381
Alignment explanation
Indices: 2680493--2681559 Score: 1626
Period size: 384 Copynumber: 2.8 Consensus size: 381
2680483 TGGAAAGCAG
* *
2680493 AAATTGAAAATACCTCAGC--GTG-CCCTGACGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
2680555 TTGAAAAACAGAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATGAGT
65 TTG-AAAACATAAATTGAAATTACTTAAG-GCGTCCTGAGGCTCAACTCACCTCTCGCAATGAGT
*
2680620 TGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTATTTCTCG
128 TGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCG
* *
2680685 CAATATGAGTTGACTTTTTTGAAAACAGAAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACT
193 CAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACT
2680750 CATTTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCA
258 CATTTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCA
*
2680815 GCATGCCCCAAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTTTTTTGAAAGATAA
323 GCATGCCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTTTT-AAAGATAA
*
2680876 AAATTGAAAATACCTCAACATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
2680941 TGAAAACATAAATTGAAATTACTTTAAGGCGTCCTGAGGCTCAACTCACCTCTCGCAATGAGTTG
66 TGAAAACATAAATTGAAATTAC-TTAAGGCGTCCTGAGGCTCAACTCACCTCTCGCAATGAGTTG
2681006 ATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
130 ATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCA
* *
2681071 ATATGAGTTGATTTTTTTGAAAACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
195 ATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCA
2681136 TTTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGC
260 TTTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGC
* * *
2681201 GTGCCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTAGAGATAG
325 ATGCCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTAAAGATAA
*
2681258 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
1 AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * * * * * *
2681323 TGAAAACATAAATTTAAAATACCTCAACGTGTCTTGAGGTTCAACTCA-TTACTCGCAATATGAG
66 TGAAAACATAAATTGAAATTA-CTTAAGGCGTCCTGAGGCTCAACTCACCT-CTCGC-A-ATGAG
* * * * **
2681387 TTGA--ATTTTGAAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
127 TTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTC
* * *
2681449 GCAATATGAGTCGATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGC
192 GCAATATGAGTTGA----TTTTTTTG-AAAACAGAAATTGAAATTACCTCAACATGTCTTGAGGC
* *
2681514 TCAACTCATTTCTCGCAATCTGAGTTGAATTTTGAAAACAGAAATT
252 TCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAACATAAATT
2681560 GAAATTATCT
Statistics
Matches: 633, Mismatches: 37, Indels: 24
0.91 0.05 0.03
Matches are distributed among these distances:
381 58 0.09
382 121 0.19
383 29 0.05
384 294 0.46
385 52 0.08
386 69 0.11
387 10 0.02
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (381 bp):
AAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAACATAAATTGAAATTACTTAAGGCGTCCTGAGGCTCAACTCACCTCTCGCAATGAGTTGA
TTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAA
TATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCAT
TTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCA
TGCCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTAAAGATAA
Found at i:2681279 original size:235 final size:222
Alignment explanation
Indices: 2680493--2681623 Score: 986
Period size: 235 Copynumber: 5.0 Consensus size: 222
2680483 TGGAAAGCAG
* ** *
2680493 AAATTGAAAATACCTCAGCGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
1 AAATTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTT
* * * ** * **
2680555 TTGAAAAACAGAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGC-A-ATGA
65 TTTAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* * * * * *
2680618 GTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTATTTCT
130 GTTGA--TTTTTGAAA-ACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
* *** *
2680683 CGCAATATGAGTTGACTTTT-TTGAAAACAG
192 CGCAATATGAGTTGAATTTTGAAAAAAACAA
* * * *** **
2680713 AAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
1 AAATTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGC-ATATGAGTTG-ATTTT-
** * * ** * *** **
2680778 AAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCATGCCCCAAGGCTCAACTCACCTCTC
63 -----T-TTTTAA-AGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTC
* * * * * * * *
2680843 GTATTATGAGTTGATTTTTTTTTTGAAAGATAAAAATTGAAAATACCTCAACATGTGAAC-CGAG
121 GCAATATGAGTTGA-----TTTTTGAAA-ACAGAAATTTAAATTACCTCAAC--GTG-TCTTGAG
** * *
2680907 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG---AAAACAT
177 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAAAACAA
* * **
2680950 AAATTGAAATTACTTTAAGGCGT--CCTGAGGCTCAACTCACCTCTCGCA-ATGAGTTGA-TTTT
1 AAATTGAAATTAC-CTCA-GCGTGCCCCAAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTT
* *
2681011 TTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
64 TTTTAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
2681076 AGTTGATTTTTTTGAAAACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
129 AGTTGA--TTTTTGAAAACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
2681141 CGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAA
192 CGCAATATGAGTTGAATTTTG-------AA--AA-AAACAA
*
2681182 AAATTGCCAA-TACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTT
1 AAATTG-AAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCA-TATGAGTTGATTTTT
* * * **
2681246 TTTTAGAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAAT
64 TTTTAAAGACAGAAATTGAAAATACCTCAGCATGT---CTTGAGGCTCAACTCATTTCTCGCAAT
* * * * *
2681310 ATGAATTGATTTTTGAAAACATAAATTTAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTAC
126 ATGAGTTGATTTTTGAAAACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
2681375 TCGCAATATGAGTTGAATTTTG---AAAACAA
191 TCGCAATATGAGTTGAATTTTGAAAAAAACAA
* ** *
2681404 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTT
1 AAATTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGC-ATATGAGTTGA--TTTT
* *
2681469 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATC
63 TTTTT-AAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATA
* * *
2681534 TGAGTTGAATTTTGAAAACAGAAATTGAAATTATCTCAACGTGTCTTGAGGCTCAACTCATTTCT
127 TGAGTTGATTTTTGAAAACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
2681599 CGCAATATGAGTTGAATTTTGAAAA
192 CGCAATATGAGTTGAATTTTGAAAA
2681624 TAGAAATAAA
Statistics
Matches: 756, Mismatches: 100, Indels: 104
0.79 0.10 0.11
Matches are distributed among these distances:
218 1 0.00
219 39 0.05
220 50 0.07
221 22 0.03
222 67 0.09
223 102 0.13
224 10 0.01
225 82 0.11
226 4 0.01
227 1 0.00
230 5 0.01
231 6 0.01
232 80 0.11
233 5 0.01
234 19 0.03
235 117 0.15
236 1 0.00
237 103 0.14
238 3 0.00
239 38 0.05
240 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (222 bp):
AAATTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTT
TTAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGATTTTTGAAAACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTGAATTTTGAAAAAAACAA
Found at i:2681510 original size:151 final size:149
Alignment explanation
Indices: 2680825--2681702 Score: 804
Period size: 151 Copynumber: 5.8 Consensus size: 149
2680815 GCATGCCCCA
* * * *
2680825 AGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTTTTTTGAAAGATAAAAATTGAAAATACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTGAAAAACAAAAATTGAAAATACC
* ** * *
2680890 TCAACATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAAT
65 TCAACATGT---CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAT
* * *
2680954 TGAAATTACTTTAAG-GCGTCCTG
127 TGAAATTAC-CTCAGCGTGTCCTG
*
2680977 AGGCTCAACTCACCTCTCGC-A-ATGAGTTGA--TTTTTTTGAAAGACAAAAATTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAAAAATTGAAAATACCT
* * *
2681038 CAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTT
66 CAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTG
* *
2681103 AAATTACCTCAACGTGTCTTG
129 AAATTACCTCAGCGTGTCCTG
** **
2681124 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACATAAATT-AAGAAACAAAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT------T-TTTTGAA-AAACAAAAATTG
** * * * *** ** * * *
2681188 CCAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTAGA
57 AAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---ATTTTGA-A
* * * *
2681253 GATAGAAATTGAAAATACCTCAGCATGTGAACC-G
118 AACAGAAATTGAAATTACCTCAGC--GTG-TCCTG
* * *
2681287 AGGCTCAACTCACCTCTCGCAATATGAATTGA----TTTTTG-AAAACATAAATTTAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAAAAATTGAAAATACCT
* * * *
2681347 CAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAA
66 CAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAA
2681412 ATTACCTCAGCGTGTCCTG
131 ATTACCTCAGCGTGTCCTG
* *
2681431 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTGAAAAACAGAAATTGAAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTTGAAAAACAAAAATTGAAAATAC
* *
2681496 CTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATTTTGAAAACAGAAATTG
64 CTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
* * *
2681561 AAATTATCTCAACGTGTCTTG
129 AAATTACCTCAGCGTGTCCTG
** * * * *
2681582 AGGCTCAACTCATTTCTCGCAATATGAGTTGA----ATTTTG-AAAATAGAAA-TAAAAATTACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAAAAATTGAAAA-TACC
* * * * * *
2681641 TCAACGTGTCTTAAGGTTCAACTCATTTCTCGTAATATAAGTTGAATTTTGAAAATAGAAAT
65 TCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAT
2681703 AAAAATATCA
Statistics
Matches: 604, Mismatches: 90, Indels: 72
0.79 0.12 0.09
Matches are distributed among these distances:
143 7 0.01
144 102 0.17
145 36 0.06
146 23 0.04
147 90 0.15
148 1 0.00
149 8 0.01
150 67 0.11
151 127 0.21
152 22 0.04
158 3 0.00
159 56 0.09
160 8 0.01
161 20 0.03
162 1 0.00
163 32 0.05
164 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (149 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAACAAAAATTGAAAATACCT
CAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAA
ATTACCTCAGCGTGTCCTG
Found at i:2681718 original size:223 final size:223
Alignment explanation
Indices: 2680485--2681719 Score: 1149
Period size: 223 Copynumber: 5.4 Consensus size: 223
2680475 GCAAAAATTG
* * * * *
2680485 GAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * **
2680550 G-ATTTT-T-GA-A-AAACAGAAATTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCT
66 GAATTTTGTAAATAGAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCT
* *
2680610 CGC-A-ATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCA
131 CGCAATATGAGTTGA-TTTTTTGAAA-ACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCA
* *
2680673 ACTTATTTCTCGCAATATGAGTTGACTTTTTT
194 ACTCATTTCTCGCAATATGAGTTGA--ATTTT
* * **
2680705 GAAAACAGAAATTGAAATTACCTCAACCTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
** * **
2680770 GAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCATGCCCCAAGGCTCAACT
66 GAATTTTG-----TAAA-T-AGAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACT
* * *
2680835 CACCTCTCGTATTATGAGTTGATTTTTTTTTTGAAAGATAAAAATTGAAAATACCTCAACATGTG
124 CACCTCTCGCAATATGAGTTGA----TTTTTTGAAA-ACAAAAATTGAAAATACCTCAAC--GTG
* * ** *
2680900 AAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
182 -TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
* * * * *
2680942 GAAAACATAAATTGAAATTACTTTAAGGCGTCCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTT
1 GAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * **
2681005 GATTTTTTTGAA-AG--ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCT
66 GAATTTTGTAAATAGAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCT
* * *
2681067 CGCAATATGAGTTGATTTTTTTGAAAACAGAAATTTAAATTACCTCAACGTGTCTTGAGGCTCAA
131 CGCAATATGAGTTGA-TTTTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
2681132 CTCATTTCTCGCAATATGAGTTGAATTTT
195 CTCATTTCTCGCAATATGAGTTGAATTTT
* * * **
2681161 G-AAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTC
1 GAAAACAGAAATT--G------AAA-T-----TACCTCAACGTGTCCTGAGGCTCAACTCACCTC
* *** * * *
2681225 TCGCATTATGAGTTG-ATTTT-TTTTTAGAGATAGAAATTGAAAATACCTCAGCATGTGAACC-G
52 TCGCAATATGAGTTGAATTTTGTAAATAGAAACAAAAATTGAAAATACCTCAGCATGT---CCTG
* * *
2681287 AGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTGAAAACATAAATTTAAAATACCTCAAC
114 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAAC
* *
2681351 GTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTT
179 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
* * *
2681396 GAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTC
1 GAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *** * * * **
2681461 GATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTC
66 GAATTTTGTAAAT-AGAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTC
* * * * *
2681526 TCGCAATCTGAGTTGA-ATTTTGAAAACAGAAATTGAAATTATCTCAACGTGTCTTGAGGCTCAA
130 TCGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
2681590 CTCATTTCTCGCAATATGAGTTGAATTTT
195 CTCATTTCTCGCAATATGAGTTGAATTTT
* ** * * * ** * *
2681619 GAAAATAGAAATAAAAATTACCTCAACGTGTCTTAAGGTTCAACTCATTTCTCGTAATATAAGTT
1 GAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
2681684 GAATTTTGAAAATAGAAATAAAAATATCAAAATACC
66 GAATTTTGTAAATAGAAACAAAAAT-TGAAAATACC
2681720 AAAACCTGTT
Statistics
Matches: 838, Mismatches: 128, Indels: 95
0.79 0.12 0.09
Matches are distributed among these distances:
218 12 0.01
219 39 0.05
220 58 0.07
221 24 0.03
222 64 0.08
223 171 0.20
224 5 0.01
225 81 0.10
226 3 0.00
227 5 0.01
228 4 0.00
230 3 0.00
231 1 0.00
232 73 0.09
233 6 0.01
234 18 0.02
235 112 0.13
236 11 0.01
237 114 0.14
238 1 0.00
239 32 0.04
240 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (223 bp):
GAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GAATTTTGTAAATAGAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
TCATTTCTCGCAATATGAGTTGAATTTT
Found at i:2687244 original size:15 final size:17
Alignment explanation
Indices: 2687224--2687255 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2687214 TTAGGAAACG
2687224 TACATAA-A-AAATATA
1 TACATAATATAAATATA
2687239 TACATAATATAAATATA
1 TACATAATATAAATATA
2687256 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:2687800 original size:11 final size:11
Alignment explanation
Indices: 2687766--2687807 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
2687756 AAATCATTTT
2687766 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
2687777 GAA-AAAAAAA
1 GAAGAGAGAAA
*
2687787 GAAGGGAGAAA
1 GAAGAGAGAAA
2687798 GAAGAGAGAA
1 GAAGAGAGAA
2687808 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:2689315 original size:74 final size:75
Alignment explanation
Indices: 2689136--2690017 Score: 775
Period size: 72 Copynumber: 11.6 Consensus size: 75
2689126 GTGATCTGAA
*
2689136 GCTCAACTCACTTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
2689201 ATGTGAACC--GAG
65 --GTG-TCCTTGAG
* * *
2689213 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
2689278 TG-CCTTGAG
66 TGTCCTTGAG
* * * * *
2689287 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAATA-AAATTTGAAATTACCTCAAC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAA-TTGAAAATACCTCAGC
2689349 GTGTTCC--GAG
65 GTG-TCCTTGAG
* * * *
2689359 GCTTAACTCACCTCTCGCAATATGAGTTGCTTTTTTTTTTGAAAGACAGAAATTGAAAACACCTC
1 GCTCAACTCACTTCTCGCAATATGAGTTG---ATTTTTTTGAAA-ACAGAAATTGAAAATACCTC
*
2689424 AGCATGT-CTTGAG
62 AGCGTGTCCTTGAG
* * *
2689437 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCA
1 GCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTTTTGAAAACAGAAATTGAAAATACCTCA
2689502 GCGTGTCC-TGAG
63 GCGTGTCCTTGAG
* * ** * * * **
2689514 GCTCAACTCACCTCTCACAATATGAGTTGAATTTTTTTTTTAAATATAAATTTAAAAGTAGAAAT
1 GCTCAACTCACTTCTCGCAATATGAGTTG-A-TTTTTTTGAAAACAGAAATTGAAAA-T--ACCT
* ** **
2689579 -TGAAAT-TACCTCAACG
61 CAG-CGTGT-CCTTGA-G
* * * * *
2689595 TGCCTTGAGGCTCAACTTAC-CTC--T-CGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTGA
1 -G-C-TCA-ACTC-ACTT-CTCGCAATATG-AGT-TGA--T--TTTTTTGAAA-ACAGAAATTGA
*
2689656 AAATACCTCAGCATGT-CTTGAG
53 AAATACCTCAGCGTGTCCTTGAG
* * * *
2689678 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATGGAAATTACCTCAG
1 GCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTTTGAAAACAGAAATTGAAAATACCTCAG
2689743 CGTGTCC-TGAG
64 CGTGTCCTTGAG
* * *
2689754 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
2689817 TGTCC-CGAG
66 TGTCCTTGAG
* *
2689826 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
2689891 ATGT-CTTGAG
65 GTGTCCTTGAG
* * * *
2689901 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
2689966 TGTCC-TGAG
66 TGTCCTTGAG
*
2689975 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAA
1 GCTCAACTCACTTCTCGCAATATGAGTTG-ATTTTTTTGAAAA
2690018 ATATAAATTT
Statistics
Matches: 660, Mismatches: 94, Indels: 104
0.77 0.11 0.12
Matches are distributed among these distances:
71 3 0.00
72 125 0.19
74 99 0.15
75 76 0.12
76 99 0.15
77 113 0.17
78 65 0.10
79 16 0.02
80 7 0.01
81 3 0.00
82 2 0.00
83 3 0.00
84 10 0.02
85 11 0.02
86 7 0.01
87 10 0.02
88 11 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (75 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTCCTTGAG
Found at i:2689443 original size:150 final size:147
Alignment explanation
Indices: 2689136--2690187 Score: 1056
Period size: 164 Copynumber: 6.8 Consensus size: 147
2689126 GTGATCTGAA
* * *
2689136 GCTCAACTCACTTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
* * *
2689201 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTG-ATTTTTTTGAAAACAGAAATTGA
64 --GTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTGAAAACAGAAATTGA
* *
2689265 AAATACCTCAACGTGCCTTGAG
126 AAATACCTCAGCGTGTCTTGAG
* * *
2689287 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAATA-AAATTTGAAATTACCTCAACG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAA-TTGAAATTACCTCAGCG
*
2689350 TGTTCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGCTTTTTTTTTTGAAAGACAGAAATTGA
65 TG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG--TTTTTTTTTGAAA-ACAGAAATTGA
* *
2689415 AAACACCTCAGCATGTCTTGAG
126 AAATACCTCAGCGTGTCTTGAG
*
2689437 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCA
1 GCTCAACTCATTTCTCGCAATATGAGTTGA----TTTTTTGAAAACAGAAATTGAAATTACCTCA
* *
2689502 GCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGAATTTTTTTTTTAAATATAAATTT
62 GCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTG-------TTTTT---T-T---TTG
* * * *
2689567 AAAAGTAGAAATTGAAATTACCTCAACGTGCCTTGAG
112 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCTTGAG
* ** * * * *
2689604 GCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCA
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAA-ACAGAAATTGAAATTACCTCAGCG
* ** * *
2689669 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATGGAAA
65 TGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTG-TTTTTTTTTGAAAACAGAAATTGAAA
* *
2689734 TTACCTCAGCGTGTCCTGAG
128 ATACCTCAGCGTGTCTTGAG
*
2689754 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
* *
2689818 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAGACAAAAATTGAAAA
66 GT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTGAAA-ACAGAAATTGAAAA
*
2689882 TACCTCAGCATGTCTTGAG
129 TACCTCAGCGTGTCTTGAG
* *
2689901 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
*
2689966 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAA
65 TGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTG----TTTTT------T-T---TTGAAA
* * *
2690031 AGCAGAAATTGAAATTACCTCAACGTGCCTTGAG
115 A-CAGAAATTGAAAATACCTCAGCGTGTCTTGAG
* ** * * * **
2690065 GCTCAACTTACCTCTCGCAGTATGAGTTAATTTTTTTGAAAAGCAGAAATTGAAAATACCTCAAT
1 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTGAAAA-CAGAAATTGAAATTACCTCAGC
* * *
2690130 GTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTG-ATTTTTTTG-AAACAGAAAT
64 GTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTGAAAACAGAAAT
2690188 AAAAACATCA
Statistics
Matches: 760, Mismatches: 91, Indels: 103
0.80 0.10 0.11
Matches are distributed among these distances:
146 45 0.06
147 61 0.08
148 79 0.10
149 96 0.13
150 114 0.15
151 33 0.04
153 1 0.00
154 8 0.01
155 58 0.08
156 3 0.00
158 5 0.01
160 10 0.01
161 1 0.00
163 11 0.01
164 122 0.16
165 55 0.07
166 1 0.00
167 57 0.08
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (147 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
GTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTGAAAACAGAAATTGAAAATA
CCTCAGCGTGTCTTGAG
Found at i:2689630 original size:317 final size:311
Alignment explanation
Indices: 2689256--2690017 Score: 907
Period size: 317 Copynumber: 2.5 Consensus size: 311
2689246 TTTTGAAAAC
**
2689256 AGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT
1 AGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
* * * * *
2689320 TTGAAA-ATAAAATTTGAAATTACCTCAACGTGT-TCCGAGGCTTAACTCACCTCTCGCAATATG
66 TTGAAAGACAAAAATTGAAAATACCTCAACATGTCT-CGAGGCTCAACTCACCTCTCGCAATATG
* * *
2689383 AGTTGCTTTTTTTTTTGAAAGACAGAAATTGAAAACACCTCAGCATGTCTTGAGGCTCAACTCAT
130 AGTTG-ATTTTTTTTTGAAA-ACAGAAATGGAAAACACCTCAGCATGTCCTGAGGCTCAACTCAT
* * *
2689448 TTCTCGCAATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGA
193 TTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGA
2689513 GGCTCAACTCACCTCTCACAATATGAGTTGAATTTTTTTTTTAAATATAAATTTAAAAGT
253 GGCTCAACTCACCTCTCACAATATGAGTTG-ATTTTTTTTTTAAATATAAATTTAAAAGT
* * * *
2689573 AGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
* * **
2689638 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAGACAAAAATTGAAAATACCTCAACATGTCTCGAGGCTCAACTCACCTCTCGCAATATGA
* ** *
2689703 GTTGATTTTTTTTTGACAACAGAAATGGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTC
131 GTTGATTTTTTTTTGAAAACAGAAATGGAAAACACCTCAGCATGTCCTGAGGCTCAACTCATTTC
2689768 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
196 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
* * * *
2689833 TCACCTCTCGCAATATGAGTTGA----TTTTTT---T-GAAA---GACA--
261 TCACCTCTCACAATATGAGTTGATTTTTTTTTTAAATATAAATTTAAAAGT
* * * ** *
2689871 A-AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TAT
* * * * * *
2689935 TTTTACA-ACAGAAATTGAAATTACCTCAGCGTGTC-CTGAGGCTCAACTCACCTCTCGCAATAT
65 TTTGAAAGACAAAAATTGAAAATACCTCAACATGTCTC-GAGGCTCAACTCACCTCTCGCAATAT
*
2689998 GAGTTGA-ATTTTTTTGAAAA
129 GAGTTGATTTTTTTTTGAAAA
2690018 ATATAAATTT
Statistics
Matches: 393, Mismatches: 47, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
296 11 0.03
297 107 0.27
298 9 0.02
300 2 0.01
303 3 0.01
304 1 0.00
307 6 0.02
311 1 0.00
312 67 0.17
317 114 0.29
318 20 0.05
319 51 0.13
320 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (311 bp):
AGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
TTGAAAGACAAAAATTGAAAATACCTCAACATGTCTCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTTTGAAAACAGAAATGGAAAACACCTCAGCATGTCCTGAGGCTCAACTCATTTC
TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
TCACCTCTCACAATATGAGTTGATTTTTTTTTTAAATATAAATTTAAAAGT
Found at i:2690100 original size:90 final size:90
Alignment explanation
Indices: 2689943--2690106 Score: 278
Period size: 90 Copynumber: 1.8 Consensus size: 90
2689933 TTTTTTACAA
*
2689943 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
2690008 TTTTTGAAAAATATAAATTTAAAAG
66 TTTTTGAAAAATATAAATTTAAAAG
* *
2690033 CAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT-AAT
1 CAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
2690096 TTTTTTGAAAA
65 TTTTTTGAAAA
2690107 GCAGAAATTG
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
89 16 0.23
90 54 0.77
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (90 bp):
CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
TTTTTGAAAAATATAAATTTAAAAG
Found at i:2690100 original size:461 final size:461
Alignment explanation
Indices: 2689136--2690187 Score: 1650
Period size: 467 Copynumber: 2.3 Consensus size: 461
2689126 GTGATCTGAA
* * * * *
2689136 GCTCAACTCACTTCTTGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTTACCTCTCGCAGTATGAGTT-AATTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
* * *
2689201 ATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGA
65 ATGT---CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAACAGAAATGGA
*
2689265 AAATACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAA
126 AAATACCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAA
* * *
2689330 AATTTGAAATTACCTCAACGTGTTCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGCTTTTTT
191 AATTTGAAATTACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG--TATTT
*
2689395 TTTTGAAAGACAGAAATTGAAAACACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
254 TTTTGAAAGACAAAAATTGAAAACACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
2689460 GAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
319 GAGTTGA-TTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
*** *
2689525 CTCTCACAATATGAGTTGAATTTTTTTTTTAAATATAAATTTAAAAGTAGAAATTGAAATTACCT
383 CTCTCACAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCT
2689590 CAACGTGCCTTGAG
448 CAACGTGCCTTGAG
* *
2689604 GCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCA
1 GCTCAACTTACCTCTCGCAGTATGAGTTAATTTTTTGAAAGACAGAAATTGAAAATACCTCAGCA
**
2689669 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATGGAAA
66 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGA-AACAGAAATGGAAA
* *
2689734 TTACCTCAGCGTGTCC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
128 ATACCTCAACGTG-CCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-A
*
2689798 AA-TTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
191 AATTTGAAATTACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGTATTTTT
*
2689861 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
256 TTGAAAGACAAAAATTGAAAACACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
2689926 GTTGA-TTTTTTTT-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
321 GTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
2689989 TCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCTCAA
386 TCACAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCTCAA
2690054 CGTGCCTTGAG
451 CGTGCCTTGAG
*
2690065 GCTCAACTTACCTCTCGCAGTATGAGTTAATTTTTTTGAAA-AGCAGAAATTGAAAATACCTCAA
1 GCTCAACTTACCTCTCGCAGTATGAGTTAA-TTTTTTGAAAGA-CAGAAATTGAAAATACCTCAG
** *
2690129 TGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAACAGAAAT
64 CATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAGAAAT
2690188 AAAAACATCA
Statistics
Matches: 542, Mismatches: 34, Indels: 25
0.90 0.06 0.04
Matches are distributed among these distances:
459 9 0.02
460 9 0.02
461 151 0.28
462 73 0.13
464 74 0.14
465 30 0.06
466 1 0.00
467 166 0.31
468 29 0.05
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (461 bp):
GCTCAACTTACCTCTCGCAGTATGAGTTAATTTTTTGAAAGACAGAAATTGAAAATACCTCAGCA
TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAGAAATGGAAAATA
CCTCAACGTGCCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTT
GAAATTACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGTATTTTTTTGAA
AGACAAAAATTGAAAACACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
TTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACA
ATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCTCAACGTGC
CTTGAG
Found at i:2690114 original size:75 final size:75
Alignment explanation
Indices: 2690028--2690187 Score: 243
Period size: 75 Copynumber: 2.2 Consensus size: 75
2690018 ATATAAATTT
* * *
2690028 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
2690093 AATTTTTTTG
66 AATTTTTTTG
* * *
2690103 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
2690168 GATTTTTTTG
66 AATTTTTTTG
2690178 -AAA-CAGAAAT
1 AAAAGCAGAAAT
2690188 AAAAACATCA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
73 7 0.09
74 3 0.04
75 68 0.87
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (75 bp):
AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
AATTTTTTTG
Found at i:2699886 original size:18 final size:18
Alignment explanation
Indices: 2699844--2699888 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
2699834 GAAAAATGAG
2699844 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
2699861 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
2699878 AATTTTTGAAA
1 AATTTTTGAAA
2699889 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:2700498 original size:15 final size:17
Alignment explanation
Indices: 2700478--2700509 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2700468 TTAGGAAACG
2700478 TACATAA-A-AAATATA
1 TACATAATATAAATATA
2700493 TACATAATATAAATATA
1 TACATAATATAAATATA
2700510 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:2708846 original size:23 final size:22
Alignment explanation
Indices: 2708819--2708911 Score: 68
Period size: 22 Copynumber: 4.1 Consensus size: 22
2708809 ATAAATAGTA
2708819 ATAGTGTTAGAAATATACTATAT
1 ATAGTGTTAGAAATATA-TATAT
* *
2708842 ATAGTGTTTGAAGTATATATAT
1 ATAGTGTTAGAAATATATATAT
*
2708864 A-AGATAG-TAAAAATATATA-ACT
1 ATAG-T-GTTAGAAATATATATA-T
*
2708886 AGTAATGTTA-AAATATATATAAT
1 A-TAGTGTTAGAAATATATAT-AT
2708909 ATA
1 ATA
2708912 TACATATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
21 3 0.05
22 30 0.54
23 21 0.38
24 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (22 bp):
ATAGTGTTAGAAATATATATAT
Found at i:2709256 original size:3 final size:3
Alignment explanation
Indices: 2709222--2709247 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2709212 AAGTACCTAT
2709222 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
2709248 GCAATAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2709442 original size:3 final size:3
Alignment explanation
Indices: 2709436--2709703 Score: 114
Period size: 3 Copynumber: 87.7 Consensus size: 3
2709426 ATAGTAAATG
* *
2709436 TAA TAA TAA TAA TAA TAA TAA GT-A TAG T-A TAAA TAA TATG TACA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA
* *
2709483 TAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA T-A TAGA -AA TTCAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA-A TAA -T-AA
* **
2709530 -AA -AA GTAA -ACA TAA T-A TAA TGA TGT TAA -AA TAA -AA T-A TACA
1 TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * *
2709571 CTAA TAT TTA TAAA TAA TAA TAG TAA -ATA TAA TAA TAA TAA TAA TAA
1 -TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * *
2709618 TGA TAA TAA TAA TAA TAT TAA GT-A TAG T-A TAAA TAA TATG TACA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA
* * *
2709665 CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
2709704 TAGAAATTCA
Statistics
Matches: 201, Mismatches: 34, Indels: 60
0.68 0.12 0.20
Matches are distributed among these distances:
2 21 0.10
3 147 0.73
4 29 0.14
5 4 0.02
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2709761 original size:16 final size:16
Alignment explanation
Indices: 2709728--2709760 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2709718 AACTAAACAT
*
2709728 AATATAATAATATTAA
1 AATAAAATAATATTAA
2709744 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
2709759 AA
1 AA
2709761 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:2713143 original size:37 final size:38
Alignment explanation
Indices: 2713089--2713160 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
2713079 ATTTAATTAA
* *
2713089 TTTTTAAAAATTTAAAATT-TCAAAAAATTATAAAAAC
1 TTTTTAAAAATTAAAAATTATCAAAAAAATATAAAAAC
* *
2713126 TTTTTTAAAATTAAAAATTATTAAAAAAATATAAA
1 TTTTTAAAAATTAAAAATTATCAAAAAAATATAAA
2713161 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (38 bp):
TTTTTAAAAATTAAAAATTATCAAAAAAATATAAAAAC
Found at i:2718605 original size:45 final size:47
Alignment explanation
Indices: 2718512--2718619 Score: 123
Period size: 49 Copynumber: 2.3 Consensus size: 47
2718502 TACTGGTTCT
* *
2718512 CAATTTATTTATATTGTAATAGTTTGATTCTACTTTATAATTATTCGAA
1 CAATTTATTTATATTGTAATAGTTTGA-T-TACTTTATAACTACTCGAA
* * *
2718561 CAATTTATTTATATTTTAGTAGTTTGA-TAC-TTATAGCTACTCGAA
1 CAATTTATTTATATTGTAATAGTTTGATTACTTTATAACTACTCGAA
*
2718606 C-ATATATTTATATT
1 CAATTTATTTATATT
2718620 ATACTTGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
44 12 0.23
45 13 0.25
46 3 0.06
49 25 0.47
ACGTcount: A:0.32, C:0.09, G:0.08, T:0.50
Consensus pattern (47 bp):
CAATTTATTTATATTGTAATAGTTTGATTACTTTATAACTACTCGAA
Found at i:2728852 original size:18 final size:18
Alignment explanation
Indices: 2728829--2728863 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2728819 TTTTTTTTAA
2728829 AAAAATCATCATGAAAAG
1 AAAAATCATCATGAAAAG
2728847 AAAAATCATCATGAAAA
1 AAAAATCATCATGAAAA
2728864 TTATAGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.11, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAAATCATCATGAAAAG
Found at i:2734471 original size:30 final size:30
Alignment explanation
Indices: 2734427--2734489 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
2734417 ACTTAACAAG
2734427 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
2734457 CAAATTTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
2734487 CAA
1 CAA
2734490 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:2735525 original size:21 final size:19
Alignment explanation
Indices: 2735508--2735548 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
2735498 TAAAATTACC
2735508 TTTATTTTATTTATAATTTAA
1 TTTATTTT-TTTATAA-TTAA
*
2735529 TTTATTTTTTTATTATTAA
1 TTTATTTTTTTATAATTAA
2735548 T
1 T
2735549 AATTAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATTTTTTTATAATTAA
Found at i:2738377 original size:21 final size:21
Alignment explanation
Indices: 2738353--2738393 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2738343 ATTTTGAATT
2738353 GATTTAATATATAAT-TATATC
1 GATTTAA-ATATAATATATATC
*
2738374 GATTTAAATATTATATATAT
1 GATTTAAATATAATATATAT
2738394 TAATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (21 bp):
GATTTAAATATAATATATATC
Found at i:2740497 original size:27 final size:25
Alignment explanation
Indices: 2740467--2740531 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
2740457 TAAGACTATC
2740467 CATATTTTTTTAAAATTAAAATATATT
1 CATATTTTTTT-AAATT-AAATATATT
*
2740494 CATATTGTTTTT-AATTTAATATATT
1 CATATT-TTTTTAAATTAAATATATT
*
2740519 TATATATTTTTTA
1 CATAT-TTTTTTA
2740532 TTTATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 17 0.52
26 5 0.15
27 6 0.18
28 5 0.15
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (25 bp):
CATATTTTTTTAAATTAAATATATT
Found at i:2743268 original size:26 final size:26
Alignment explanation
Indices: 2743208--2743271 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
2743198 TATTTATCAC
*
2743208 TTAAAAAATATTAAATTAATTTTATT
1 TTAAAAAATATTAAATAAATTTTATT
2743234 TTATTAAAAAT-TTAAAATAAATTATTATT
1 TTA--AAAAATATT-AAATAAATT-TTATT
*
2743263 TAAAAAAAT
1 TTAAAAAAT
2743272 GAGATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
26 3 0.09
27 8 0.25
28 14 0.44
29 7 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTAAAAAATATTAAATAAATTTTATT
Found at i:2744981 original size:34 final size:34
Alignment explanation
Indices: 2744938--2745007 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
2744928 AACAACAAAC
2744938 AATAATATATCAGGTTAAGAGTCTAATTGAGCCA
1 AATAATATATCAGGTTAAGAGTCTAATTGAGCCA
2744972 AATAATATATCAGGTTAAGAGTCTAATTGAGCCA
1 AATAATATATCAGGTTAAGAGTCTAATTGAGCCA
2745006 AA
1 AA
2745008 CCAAGTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (34 bp):
AATAATATATCAGGTTAAGAGTCTAATTGAGCCA
Found at i:2746080 original size:29 final size:28
Alignment explanation
Indices: 2746041--2746165 Score: 108
Period size: 29 Copynumber: 4.2 Consensus size: 28
2746031 GGTTGCCCAC
* *
2746041 ATAAGGGCCAAACATTTCAAAATGGTCAT
1 ATAA-GGCCAAACATTTCAAAATGATCAA
*
2746070 ATAAGGCCCAAACATTTACAAAAGTGCTCAA
1 ATAAGG-CCAAACATTT-CAAAA-TGATCAA
* *
2746101 ATGAAGGCCAAACCTTTCAAAATGATCAG
1 AT-AAGGCCAAACATTTCAAAATGATCAA
* *
2746130 ATAAAAGCCAAACCTTTTCAAAATG-TACAA
1 AT-AAGGCCAAA-CATTTCAAAATGAT-CAA
2746160 ATAAGG
1 ATAAGG
2746166 GTTAAAACTT
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.03
29 33 0.41
30 25 0.31
31 16 0.20
32 4 0.05
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (28 bp):
ATAAGGCCAAACATTTCAAAATGATCAA
Found at i:2753412 original size:21 final size:21
Alignment explanation
Indices: 2753388--2753427 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2753378 ACATAAATAT
*
2753388 TTTAAAAATTATAATAATAAA
1 TTTAAAAATAATAATAATAAA
* *
2753409 TTTAATAATAATATTAATA
1 TTTAAAAATAATAATAATA
2753428 TTAAATAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAAAAATAATAATAATAAA
Found at i:2753416 original size:12 final size:12
Alignment explanation
Indices: 2753393--2753452 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
2753383 AATATTTTAA
2753393 AAATTATAATAAT
1 AAATT-TAATAAT
2753406 AAATTTAATAAT
1 AAATTTAATAAT
*
2753418 -AATATTAATATT
1 AAAT-TTAATAAT
*
2753430 AAA-TAAAT-AT
1 AAATTTAATAAT
*
2753440 AAATATAATAAT
1 AAATTTAATAAT
2753452 A
1 A
2753453 TTAAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
10 4 0.11
11 10 0.26
12 17 0.45
13 7 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATTTAATAAT
Found at i:2753416 original size:15 final size:15
Alignment explanation
Indices: 2753398--2753458 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 15
2753388 TTTAAAAATT
2753398 ATAATAATAAATTTA
1 ATAATAATAAATTTA
2753413 ATAATAATATTAATATTAA
1 ATAATAATA--AAT-TT-A
*
2753432 ATAA-ATATAAATATA
1 ATAATA-ATAAATTTA
*
2753447 ATAATATTAAAT
1 ATAATAATAAAT
2753459 AAAATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
15 19 0.50
16 2 0.05
17 6 0.16
18 3 0.08
19 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATAATAAATTTA
Found at i:2754306 original size:19 final size:19
Alignment explanation
Indices: 2754284--2754326 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2754274 TAATATGTTG
*
2754284 TTAAATTATTATTCAAATT
1 TTAAATTAATATTCAAATT
* *
2754303 TTAAATTAATCTTTAAATT
1 TTAAATTAATATTCAAATT
2754322 TTAAA
1 TTAAA
2754327 ATGTTCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAATTAATATTCAAATT
Found at i:2757319 original size:14 final size:14
Alignment explanation
Indices: 2757300--2757327 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2757290 TTGTACTACC
2757300 TAAAAATAAAATTA
1 TAAAAATAAAATTA
2757314 TAAAAATAAAATTA
1 TAAAAATAAAATTA
2757328 AAGTTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAAATAAAATTA
Found at i:2758487 original size:20 final size:19
Alignment explanation
Indices: 2758461--2758513 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
2758451 TTCATTATAT
2758461 ATTTTTAGAATTTTTATGA
1 ATTTTTAGAATTTTTATGA
* *
2758480 ACTTTTTATAATTTGTTTTGA
1 A-TTTTTAGAATTT-TTATGA
2758501 A-TTTT-GAATTTTT
1 ATTTTTAGAATTTTT
2758514 GTAATTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 5 0.17
20 11 0.38
21 6 0.21
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.62
Consensus pattern (19 bp):
ATTTTTAGAATTTTTATGA
Found at i:2766430 original size:425 final size:426
Alignment explanation
Indices: 2765640--2766491 Score: 1688
Period size: 425 Copynumber: 2.0 Consensus size: 426
2765630 ACAACGAAAG
2765640 ATGCTGTCAACTATAGTATTATTGAATCATCAATAGCTGAAATCGGCGAAAGAACTTGTTTTCAA
1 ATGCTGTCAACTATAGTATTATTGAATCATCAATAGCTGAAATCGGCGAAAGAACTTGTTTTCAA
2765705 TATACCTGAGTATATATCCAATCAACAGATCTCCTCAGCTGACTAACCTGCCAGATTTTGTAACT
66 TATACCTGAGTATATATCCAATCAACAGATCTCCTCAGCTGACTAACCTGCCAGATTTTGTAACT
2765770 ACAATCAAATGGGCAATTCCAACAAATAGTTGCTCCTGCCGACACTAATTTAGATAAAACTACCA
131 ACAATCAAATGGGCAATTCCAACAAATAGTTGCTCCTGCCGACACTAATTTAGATAAAACTACCA
2765835 TGGAAGCTCTGCATTTTGCTCCATCTACTAAAAAAAGGGGCAAATTAGTCCCTTAATGCTAGATC
196 TGGAAGCTCTGCATTTTGCTCCATCTACTAAAAAAAGGGGCAAATTAGTCCCTTAATGCTAGATC
2765900 AAAGAGCAAACTAATTCTTTAGTCAAAAATTCCATCCAACGGATGACAGTTTTAATAGAAATAAC
261 AAAGAGCAAACTAATTCTTTAGTCAAAAATTCCATCCAACGGATGACAGTTTTAATAGAAATAAC
2765965 TAATTTGCTCTTTGATTTAATGTATAGGGACTAATTTGC-TTTTTTTTTTAGTAGAGAGGGTAAA
326 TAATTTGCTCTTTGATTTAATGTATAGGGACTAATTTGCTTTTTTTTTTTAGTAGAGAGGGTAAA
2766029 ATGCAATCTGACTCAGAGTCTCCATGGAACTTTTAC
391 ATGCAATCTGACTCAGAGTCTCCATGGAACTTTTAC
2766065 ATGCTGTCAACTATAGTATTATTGAATCATCAATAGCTGAAATCGGCGAAAGAACTTGTTTTCAA
1 ATGCTGTCAACTATAGTATTATTGAATCATCAATAGCTGAAATCGGCGAAAGAACTTGTTTTCAA
2766130 TATACCTGAGTATATATCCAATCAACAGATCTCCTCAGCTGACTAACCTGCCAGATTTTGTAACT
66 TATACCTGAGTATATATCCAATCAACAGATCTCCTCAGCTGACTAACCTGCCAGATTTTGTAACT
2766195 ACAATCAAATGGGCAATTCCAACAAATAGTTGCTCCTGCCGACACTAATTTAGATAAAACTACCA
131 ACAATCAAATGGGCAATTCCAACAAATAGTTGCTCCTGCCGACACTAATTTAGATAAAACTACCA
2766260 TGGAAGCTCTGCATTTTGCTCCATCTACTAAAAAAAGGGGCAAATTAGTCCCTTAATGCTAGATC
196 TGGAAGCTCTGCATTTTGCTCCATCTACTAAAAAAAGGGGCAAATTAGTCCCTTAATGCTAGATC
2766325 AAAGAGCAAACTAATTCTTTAGTCAAAAATTCCATCCAACGGATGACAGTTTTAATAGAAATAAC
261 AAAGAGCAAACTAATTCTTTAGTCAAAAATTCCATCCAACGGATGACAGTTTTAATAGAAATAAC
2766390 TAATTTGCTCTTTGATTTAATGTATAGGGACTAATTTGCTTTTTTTTTTTTAGTAGAGAGGGTAA
326 TAATTTGCTCTTTGATTTAATGTATAGGGACTAATTTGC-TTTTTTTTTTTAGTAGAGAGGGTAA
2766455 AATGCAATCTGACTCAGAGTCTCCATGGAACTTTTAC
390 AATGCAATCTGACTCAGAGTCTCCATGGAACTTTTAC
2766492 CCACTAATTT
Statistics
Matches: 425, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
425 364 0.86
427 61 0.14
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (426 bp):
ATGCTGTCAACTATAGTATTATTGAATCATCAATAGCTGAAATCGGCGAAAGAACTTGTTTTCAA
TATACCTGAGTATATATCCAATCAACAGATCTCCTCAGCTGACTAACCTGCCAGATTTTGTAACT
ACAATCAAATGGGCAATTCCAACAAATAGTTGCTCCTGCCGACACTAATTTAGATAAAACTACCA
TGGAAGCTCTGCATTTTGCTCCATCTACTAAAAAAAGGGGCAAATTAGTCCCTTAATGCTAGATC
AAAGAGCAAACTAATTCTTTAGTCAAAAATTCCATCCAACGGATGACAGTTTTAATAGAAATAAC
TAATTTGCTCTTTGATTTAATGTATAGGGACTAATTTGCTTTTTTTTTTTAGTAGAGAGGGTAAA
ATGCAATCTGACTCAGAGTCTCCATGGAACTTTTAC
Found at i:2767591 original size:33 final size:33
Alignment explanation
Indices: 2767554--2767618 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
2767544 AAATAGTATC
* * *
2767554 AAAATAGTGAAAAAATAAT-AAGAAAATAGCAAG
1 AAAATAAT-AAAAAACAATGAAAAAAATAGCAAG
*
2767587 AAAATAATAAAAAACAGTGAAAAAAATAGCAA
1 AAAATAATAAAAAACAATGAAAAAAATAGCAA
2767619 ATTTTTTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (33 bp):
AAAATAATAAAAAACAATGAAAAAAATAGCAAG
Found at i:2767612 original size:22 final size:23
Alignment explanation
Indices: 2767554--2767614 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
2767544 AAATAGTATC
2767554 AAAATAGTG-AAAAAATAATAAG
1 AAAATAGTGAAAAAAATAATAAG
* *
2767576 AAAATAG-CAAGAAAATAATAA-
1 AAAATAGTGAAAAAAATAATAAG
*
2767597 AAAACAGTGAAAAAAATA
1 AAAATAGTGAAAAAAATA
2767615 GCAAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.70, C:0.03, G:0.11, T:0.15
Consensus pattern (23 bp):
AAAATAGTGAAAAAAATAATAAG
Found at i:2775970 original size:89 final size:90
Alignment explanation
Indices: 2775814--2775985 Score: 249
Period size: 89 Copynumber: 1.9 Consensus size: 90
2775804 AAATCTAACT
*
2775814 TTATAACCATCTTTGAATGCTTGCAGACAGATTATACAAGCTTTGAAATAACTTAGCATCTAGGG
1 TTATAACCATCTTTGAATGCTTACAGACAGATTATACAAGCTTTGAAATAACTTAGCATCTAGGG
*
2775879 AGCATATTGTTCTGGTGCCAGAGCC
66 AGCATATTGTTATGGTGCCAGAGCC
* ** * * *
2775904 TTATAATCATCTTTGTTTGCTTATAGATAGA-TATACAATCTTTGAAATAACTTAGCATCTCA-G
1 TTATAACCATCTTTGAATGCTTACAGACAGATTATACAAGCTTTGAAATAACTTAGCATCT-AGG
2775967 GAGCATATTGTTATGGTGC
65 GAGCATATTGTTATGGTGC
2775986 TAGGTTTTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
89 47 0.64
90 26 0.36
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (90 bp):
TTATAACCATCTTTGAATGCTTACAGACAGATTATACAAGCTTTGAAATAACTTAGCATCTAGGG
AGCATATTGTTATGGTGCCAGAGCC
Found at i:2789238 original size:22 final size:23
Alignment explanation
Indices: 2789198--2789242 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2789188 ATAAATAAAA
2789198 AAATAAAAAAAATATTAAATATT
1 AAATAAAAAAAATATTAAATATT
* *
2789221 AAATTAAAATAATA-TAAATATT
1 AAATAAAAAAAATATTAAATATT
2789243 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATAAAAAAAATATTAAATATT
Found at i:2791788 original size:23 final size:23
Alignment explanation
Indices: 2791706--2791792 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
2791696 CCTGATCAAT
*
2791706 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
2791728 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
2791748 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
2791771 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
2791793 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:2793853 original size:18 final size:17
Alignment explanation
Indices: 2793789--2793855 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 17
2793779 TTTTTCTCAT
2793789 TATTTTATTCTAATT-TTA
1 TATTTTATT-T-ATTATTA
*
2793807 -ATATTATTTATACTATTA
1 TATTTTATTTAT--TATTA
2793825 TATTTTA-TTATTATTA
1 TATTTTATTTATTATTA
2793841 TATTTTTATTTATTA
1 TA-TTTTATTTATTA
2793856 GCATTTCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
15 2 0.05
16 8 0.20
17 13 0.32
18 13 0.32
19 5 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTATTTATTATTA
Found at i:2794145 original size:24 final size:26
Alignment explanation
Indices: 2794089--2794162 Score: 89
Period size: 24 Copynumber: 2.9 Consensus size: 26
2794079 ATATATTTAT
2794089 TATATTATGTATATATTTTTAATAAC
1 TATATTATGTATATATTTTTAATAAC
* *
2794115 TATATTATGTATGTA-TTTTAA-CAC
1 TATATTATGTATATATTTTTAATAAC
* * *
2794139 TATATTACGTACATACTTTTAATA
1 TATATTATGTATATATTTTTAATA
2794163 TTATTATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.35
25 12 0.30
26 14 0.35
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.50
Consensus pattern (26 bp):
TATATTATGTATATATTTTTAATAAC
Found at i:2794327 original size:21 final size:21
Alignment explanation
Indices: 2794300--2794374 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 21
2794290 ATTTCTAATA
*
2794300 TATATATATATCGTATATGTTTT
1 TATATATAT-TAGTATAT-TTTT
2794323 TATATATATTATGTATATTTTT
1 TATATATATTA-GTATATTTTT
*
2794345 AATAT-TATTAGTTATATTTTTT
1 TATATATATTAG-TATA-TTTTT
2794367 TATATATA
1 TATATATA
2794375 CTATTCCGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
20 1 0.02
21 9 0.20
22 18 0.40
23 17 0.38
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.60
Consensus pattern (21 bp):
TATATATATTAGTATATTTTT
Found at i:2794327 original size:23 final size:21
Alignment explanation
Indices: 2794300--2794374 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 21
2794290 ATTTCTAATA
2794300 TATATATATATCGTATATGTTTT
1 TATATATATAT-GTATAT-TTTT
2794323 TATATATATTATGTATATTTTT
1 TATATATA-TATGTATATTTTT
*
2794345 AATAT-TAT-TAGTTATATTTTT
1 TATATATATAT-G-TATATTTTT
2794366 T-TATATATA
1 TATATATATA
2794375 CTATTCCGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 14 0.31
22 8 0.18
23 14 0.31
24 3 0.07
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.60
Consensus pattern (21 bp):
TATATATATATGTATATTTTT
Found at i:2794446 original size:19 final size:20
Alignment explanation
Indices: 2794411--2794472 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
2794401 ATCCTTATTA
*
2794411 TTATTAATAT-TAGTATATGT
1 TTATT-ATATGTAGTATATCT
2794431 TTATTATATGTA-TATATCT
1 TTATTATATGTAGTATATCT
* * *
2794450 TTAATATATAT-GTACATCT
1 TTATTATATGTAGTATATCT
2794469 TTAT
1 TTAT
2794473 GTAATATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 28 0.80
20 7 0.20
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (20 bp):
TTATTATATGTAGTATATCT
Found at i:2794566 original size:24 final size:24
Alignment explanation
Indices: 2794530--2794585 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
2794520 ATGTAGATAC
* *
2794530 TATGTAAATATTTTA-ATATTATAT
1 TATGTATACATTTTATATA-TATAT
*
2794554 TATGTATACATTTTTTATATATAT
1 TATGTATACATTTTATATATATAT
*
2794578 TACGTATA
1 TATGTATA
2794586 TATATATCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (24 bp):
TATGTATACATTTTATATATATAT
Found at i:2794676 original size:26 final size:26
Alignment explanation
Indices: 2794620--2794723 Score: 73
Period size: 26 Copynumber: 4.3 Consensus size: 26
2794610 TTTATATGTC
*
2794620 ATGTATATATTTCTAAT-A-T-TA-T
1 ATGTATATTTTTCTAATAACTATATT
* * *
2794642 AT-TACATTTTTCTACATATC-ATCTT
1 ATGTATATTTTTCTA-ATAACTATATT
*
2794667 ATGTATATTTTTTTAATAACTATATT
1 ATGTATATTTTTCTAATAACTATATT
*
2794693 ATGTATA-TATT-TAAT-ACTATATT
1 ATGTATATTTTTCTAATAACTATATT
*
2794716 GTGTATAT
1 ATGTATAT
2794724 ATTTATATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
21 10 0.16
22 4 0.06
23 14 0.22
24 5 0.08
25 10 0.16
26 21 0.33
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (26 bp):
ATGTATATTTTTCTAATAACTATATT
Found at i:2794715 original size:23 final size:23
Alignment explanation
Indices: 2794678--2794748 Score: 101
Period size: 23 Copynumber: 3.1 Consensus size: 23
2794668 TGTATATTTT
2794678 TTTAATAACTATATTATGTATATA
1 TTTAAT-ACTATATTATGTATATA
*
2794702 TTTAATACTATATTGTGTATATA
1 TTTAATACTATATTATGTATATA
*
2794725 TTT-ATA-TATATTATGTATTTA
1 TTTAATACTATATTATGTATATA
2794746 TTT
1 TTT
2794749 TTTAATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 16 0.36
22 3 0.07
23 19 0.43
24 6 0.14
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (23 bp):
TTTAATACTATATTATGTATATA
Found at i:2794807 original size:36 final size:37
Alignment explanation
Indices: 2794730--2794817 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 37
2794720 ATATATTTAT
* ** * *
2794730 ATATATTATGTATTTATTTTTTAATATTTATTTTTAT
1 ATATATTATGTATATATTTTTTAATATACATTATTAC
2794767 ATATATTATGTATATA-TTTTTAATATCACATTATT-C
1 ATATATTATGTATATATTTTTTAATAT-ACATTATTAC
*
2794803 ATATATTATTTATAT
1 ATATATTATGTATAT
2794818 TATCCCATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
36 24 0.55
37 20 0.45
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (37 bp):
ATATATTATGTATATATTTTTTAATATACATTATTAC
Found at i:2794817 original size:25 final size:23
Alignment explanation
Indices: 2794758--2794817 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 23
2794748 TTTTAATATT
*
2794758 TATTTTTATATATATTATGTATA
1 TATTTTTATATACATTATGTATA
2794781 TATTTTTAATATCACATTAT-TCATA
1 TATTTTT-ATAT-ACATTATGT-ATA
2794806 TATTATTTATAT
1 TATT-TTTATAT
2794818 TATCCCATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.22
24 5 0.16
25 17 0.53
26 3 0.09
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTTTTATATACATTATGTATA
Found at i:2800812 original size:4 final size:4
Alignment explanation
Indices: 2800797--2800829 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
2800787 GTCATATATG
*
2800797 TTAT TCAT TTAT TTAT TTAT TT-T TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2800830 GCTCCTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2802568 original size:31 final size:31
Alignment explanation
Indices: 2802530--2802604 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
2802520 ATGATATTCT
2802530 TGTAGATATTTCTTTAGAAACAAATTAATAC
1 TGTAGATATTTCTTTAGAAACAAATTAATAC
2802561 TGTAGATATTTCTTTAGAAACAAATTAATAC
1 TGTAGATATTTCTTTAGAAACAAATTAATAC
*
2802592 CGTAGATATTTCT
1 TGTAGATATTTCT
2802605 AATATCATGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (31 bp):
TGTAGATATTTCTTTAGAAACAAATTAATAC
Found at i:2806301 original size:3 final size:3
Alignment explanation
Indices: 2806293--2806459 Score: 96
Period size: 3 Copynumber: 55.7 Consensus size: 3
2806283 TTCATTATGC
* *
2806293 TAT TAT TAT TAT TAT TAT TAT TCT TAT TAT TAT TATT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * * * *
2806339 TAT TAT TAT TAT CAT TAT CAT CATT TGT TTT TAT TCGT TTT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT -TAT
** * * *
2806386 T-T TAT CTAT T-T GCT CAT TTT TAT TAT TTT TAT T-T TAT CGTAT T-T
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT
2806430 TAT TAT TAT TAT TAT TAT TA- TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2806460 GTTCCTTTGT
Statistics
Matches: 129, Mismatches: 22, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
2 12 0.09
3 104 0.81
4 10 0.08
5 3 0.02
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2813688 original size:44 final size:44
Alignment explanation
Indices: 2813625--2813949 Score: 185
Period size: 44 Copynumber: 7.5 Consensus size: 44
2813615 CACCATCCTA
* * * *
2813625 TCTCCTTAAACAGTAGTGGAATAGGCTGAAGATTATGGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTATAGATCTTG
* *** * ** *** * *
2813669 TCTCCCTAAGCAGTAGTGGAGCAAATTTAAG-CGA-CCTTCCTA
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTATAGATCTTG
*
2813711 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTATAGATCTTG
* * * * * * ***
2813755 TCTCCCTAAACAGTAGTAGAGTA-GATCAAAAATGGCGAATCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTATAG-ATCTTG
* * * ** * ** ** * *
2813799 TCTCCTTAAGTAGTAGTGGAGCAGATTTAAG-CCA-CCATCCTA
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTATAGATCTTG
*
2813841 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTATAGATCTTG
* * * *
2813885 TCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGGCT-GAAGATTATAGATCTTG
* *
2813929 TTTCCCTAAACAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAG
2813950 CAGATTGGAG
Statistics
Matches: 205, Mismatches: 69, Indels: 14
0.71 0.24 0.05
Matches are distributed among these distances:
42 58 0.28
43 12 0.06
44 132 0.64
45 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTATAGATCTTG
Found at i:2813712 original size:86 final size:86
Alignment explanation
Indices: 2813577--2813775 Score: 299
Period size: 86 Copynumber: 2.3 Consensus size: 86
2813567 AAGATGGCGA
* * *
2813577 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTTAAGCCACCATCCTATCTCCTTAAACAGTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTAGAGCAAATTTAAGCCACCATCCTATCTCCCTAAACAGTAGT
*
2813642 GGAATAGGCTGAAGATTATGG
66 GGAATAGGCTGAAGATTATAG
* * * *
2813663 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATTTAAGCGACCTTCCTATCTCCCTAAGCAGTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTAGAGCAAATTTAAGCCACCATCCTATCTCCCTAAACAGTAGT
* *
2813728 GGAGTAGGCTGAAGATTGTAG
66 GGAATAGGCTGAAGATTATAG
*
2813749 ATCTTGTCTCCCTAAACAGTAGTAGAG
1 ATCTTGTCTCCCTAAGCAGTAGTAGAG
2813776 TAGATCAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 101 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (86 bp):
ATCTTGTCTCCCTAAGCAGTAGTAGAGCAAATTTAAGCCACCATCCTATCTCCCTAAACAGTAGT
GGAATAGGCTGAAGATTATAG
Found at i:2813952 original size:130 final size:130
Alignment explanation
Indices: 2813652--2813955 Score: 439
Period size: 130 Copynumber: 2.3 Consensus size: 130
2813642 GGAATAGGCT
* * * * *
2813652 GAAGATTATGGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATTTAAGCGACCTTCCTATCTCCC
1 GAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCC
*
2813717 TAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTAGAGTAGATC
66 TAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTAGAGCAGATC
* * ** * *
2813782 -AAAAATGGCGAATCTTGTCTCCTTAAGTAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCC
1 GAAGATTGTAG-ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCC
* *
2813846 CTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGAT
65 CTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTAGAGCAGAT
2813911 C
130 C
* * *
2813912 GAAGATTGTAGATCTTATTTCCCTAAACAGTAGTGGAGCAGATT
1 GAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATT
2813956 GGAGATAGCG
Statistics
Matches: 150, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
129 5 0.03
130 139 0.93
131 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (130 bp):
GAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCC
TAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTAGAGCAGATC
Found at i:2813974 original size:44 final size:44
Alignment explanation
Indices: 2813843--2813979 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
2813833 CCATCCTATC
* * * * * * * *
2813843 TCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTGTAGATCTTGTC
1 TCCCTAAACAGTAGTGGAGCAGATC-GAAGATAGGAGATATTATT
* * * *
2813887 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGTAGATCTTATT
1 TCCCTAAACAGTAGTGGAGCAGATCGAAGATAGGAGATATTATT
* *
2813931 TCCCTAAACAGTAGTGGAGCAGATTGGAGATAGCGA-ATATTATT
1 TCCCTAAACAGTAGTGGAGCAGATCGAAGATAG-GAGATATTATT
2813975 TCCCT
1 TCCCT
2813980 GAAGTTGTAG
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
44 79 0.98
45 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
TCCCTAAACAGTAGTGGAGCAGATCGAAGATAGGAGATATTATT
Found at i:2814214 original size:183 final size:183
Alignment explanation
Indices: 2814018--2814366 Score: 502
Period size: 183 Copynumber: 1.9 Consensus size: 183
2814008 TAAATTATAG
* *
2814018 ATCTTATCTCTCTAAAGTTGCAGTGAAGCA-AGTTGAAATCACATGTCTTATCTCCCTGAAGTTG
1 ATCTTATCTCTCTAAAGTTGCAGTGAAGCAGA-TTGAAACCACAAGTCTTATCTCCCTGAAGTTG
* * * *
2814082 CAGCGGAGCAGACTGAAGATAGCTAATCCTATCTTCCTGAAGCCGCAGTGGAGCAGATTAAAACG
65 CAGCAGAGCAAACTGAAGACAGCTAATCCTATCTCCCTGAAGCCGCAGTGGAGCAGATTAAAACG
* *
2814147 ACGAGTCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAAATCTACCATGGCAA
130 ACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGCAA
* * * *
2814201 ATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGAAGCCACAAGTTTTATCTCCCTGAAGTTGC
1 ATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTGAAACCACAAGTCTTATCTCCCTGAAGTTGC
* * ** * ***
2814266 AGCAGAGTAAACTGAAGACAGCTAATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAGGTGA
66 AGCAGAGCAAACTGAAGACAGCTAATCCTATCTCCCTGAAGCCGCAGTGGAGCAGATTAAAACGA
2814331 CAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGAT
131 CAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGAT
2814367 TAAACCTAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
183 144 0.99
184 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (183 bp):
ATCTTATCTCTCTAAAGTTGCAGTGAAGCAGATTGAAACCACAAGTCTTATCTCCCTGAAGTTGC
AGCAGAGCAAACTGAAGACAGCTAATCCTATCTCCCTGAAGCCGCAGTGGAGCAGATTAAAACGA
CAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGCAA
Found at i:2814448 original size:183 final size:183
Alignment explanation
Indices: 2814057--2814437 Score: 431
Period size: 183 Copynumber: 2.1 Consensus size: 183
2814047 AAGTTGAAAT
* * * * *
2814057 CACATGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCTAATCCTATCTTCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAAACTGAAGACAGCTAATCCTATCTCCCTGA
* *
2814122 AGCCGCAGTGGAGCAGATTAAAACGACGAGTCCTATACCTCTGAAGTTGCAGTAGGTTGGATCAA
66 AGCCGCAGTGGAGCAGATTAAAACGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAA
* ** *** * * ** * ** *
2814187 ATCTACCATGGCAAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGAAGC
131 ACCTAAAACCACAAATCTCATCTCCCTAAAGTTACAGTAGAGCAGATCAAAAC
* * *
2814240 CACAAGTTTTATCTCCCTGAAGTTGCAGCAGAGTAAACTGAAGACAGCTAATTCTATCTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAAACTGAAGACAGCTAATCCTATCTCCCTGA
** * *** *
2814305 AGTTGCAGTGGAGCGGATTAAGGTGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAA
66 AGCCGCAGTGGAGCAGATTAAAACGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAA
* * *
2814370 ACCTAAAACCACAAATCTCA-CATCCCTGAATTTACAGTAGAGTAGATCAAAAC
131 ACCTAAAACCACAAATCTCATC-TCCCTAAAGTTACAGTAGAGCAGATCAAAAC
*
2814423 TACAAGTCTTATCTC
1 CACAAGTCTTATCTC
2814438 TTTAAAGTTG
Statistics
Matches: 161, Mismatches: 36, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
182 1 0.01
183 160 0.99
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (183 bp):
CACAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAAACTGAAGACAGCTAATCCTATCTCCCTGA
AGCCGCAGTGGAGCAGATTAAAACGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAA
ACCTAAAACCACAAATCTCATCTCCCTAAAGTTACAGTAGAGCAGATCAAAAC
Found at i:2826598 original size:17 final size:17
Alignment explanation
Indices: 2826565--2826598 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2826555 AAAACCCAAC
*
2826565 CTTGAAACAAACTTGAA
1 CTTGAAACAAACCTGAA
*
2826582 CTTGAAACTAACCTGAA
1 CTTGAAACAAACCTGAA
2826599 TATATTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.24
Consensus pattern (17 bp):
CTTGAAACAAACCTGAA
Found at i:2835310 original size:11 final size:10
Alignment explanation
Indices: 2835289--2835333 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
2835279 CAAGAATAAA
2835289 AAAATTAA--
1 AAAATTAATC
2835297 AAAATTAATC
1 AAAATTAATC
2835307 AAAATTAATC
1 AAAATTAATC
2835317 AAAATTAACTC
1 AAAATTAA-TC
2835328 AAAATT
1 AAAATT
2835334 TAAATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.24
10 18 0.53
11 8 0.24
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATTAATC
Found at i:2839263 original size:30 final size:30
Alignment explanation
Indices: 2839217--2839282 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
2839207 TAAATATTAT
* *
2839217 AACTAGATACTAGTATACAATCTATGTTTA
1 AACTTGATACTAGTATACAATCTACGTTTA
*
2839247 AACTTGATATTAGTATACAATCTACGTTTA
1 AACTTGATACTAGTATACAATCTACGTTTA
2839277 AACTTG
1 AACTTG
2839283 TAAATTTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (30 bp):
AACTTGATACTAGTATACAATCTACGTTTA
Found at i:2840308 original size:29 final size:31
Alignment explanation
Indices: 2840276--2840350 Score: 100
Period size: 29 Copynumber: 2.5 Consensus size: 31
2840266 ACCACGATTC
2840276 AAATTTTATATATATAATTACAC-TAAAAT-
1 AAATTTTATATATATAATTACACATAAAATA
* * *
2840305 AAATTATATATATAAAATTACACATTAAATA
1 AAATTTTATATATATAATTACACATAAAATA
*
2840336 AAAGTTTATATATAT
1 AAATTTTATATATAT
2840351 TTAATATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 21 0.55
30 5 0.13
31 12 0.32
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.40
Consensus pattern (31 bp):
AAATTTTATATATATAATTACACATAAAATA
Found at i:2840311 original size:27 final size:29
Alignment explanation
Indices: 2840281--2840337 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
2840271 GATTCAAATT
2840281 TTATATATAT-AATTACAC-TAAAATAAA
1 TTATATATATAAATTACACATAAAATAAA
*
2840308 TTATATATATAAAATTACACATTAAATAAA
1 TTATATATAT-AAATTACACATAAAATAAA
2840338 AGTTTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.38
29 8 0.31
30 8 0.31
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (29 bp):
TTATATATATAAATTACACATAAAATAAA
Found at i:2845528 original size:19 final size:19
Alignment explanation
Indices: 2845504--2845560 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
2845494 TTAATGATTT
2845504 TTTATTAAGAAATTATTAG
1 TTTATTAAGAAATTATTAG
* **
2845523 TTTATTCAGCTATTATT--
1 TTTATTAAGAAATTATTAG
*
2845540 TTT-TTAATAAATTATTAG
1 TTTATTAAGAAATTATTAG
2845558 TTT
1 TTT
2845561 GAACAAAGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
16 9 0.31
17 3 0.10
18 3 0.10
19 14 0.48
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (19 bp):
TTTATTAAGAAATTATTAG
Found at i:2846946 original size:18 final size:19
Alignment explanation
Indices: 2846917--2846959 Score: 72
Period size: 17 Copynumber: 2.4 Consensus size: 19
2846907 TTTTAAAAAT
2846917 ATATTTTATTTTTA-TATA
1 ATATTTTATTTTTATTATA
2846935 AT-TTTTATTTTTATTATA
1 ATATTTTATTTTTATTATA
2846953 ATATTTT
1 ATATTTT
2846960 CCATTCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.48
18 8 0.35
19 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATATTTTATTTTTATTATA
Found at i:2846958 original size:20 final size:19
Alignment explanation
Indices: 2846901--2846959 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 19
2846891 ATACTAAATA
*
2846901 TTTACTTTTTA-AAAATATAT
1 TTTA-TTTTTATATAATAT-T
2846921 TTTATTTTTATAT-A-ATT
1 TTTATTTTTATATAATATT
2846938 TTTATTTTTATTATAATATT
1 TTTATTTTTA-TATAATATT
2846958 TT
1 TT
2846960 CCATTCCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 11 0.32
18 5 0.15
19 8 0.24
20 10 0.29
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTTATATAATATT
Found at i:2847223 original size:60 final size:58
Alignment explanation
Indices: 2847151--2847268 Score: 148
Period size: 58 Copynumber: 2.0 Consensus size: 58
2847141 AGTTAAACCC
* * * *
2847151 CTTAAATCTTAACGCCAAGA-CTTGTTATTTTGTGTTTGAATGCACATTCTCACTATTACA
1 CTTAAATCTTAACACCAAAATC-TGTTA--TTGTATTGGAATGCACATTCTCACTATTACA
* *
2847211 CTTAAATCTTAACATCAAAATCTGTTATTGTATTGGAATTCACATTCTCACTATTACA
1 CTTAAATCTTAACACCAAAATCTGTTATTGTATTGGAATGCACATTCTCACTATTACA
2847269 ATAATAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
58 28 0.55
60 22 0.43
61 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.40
Consensus pattern (58 bp):
CTTAAATCTTAACACCAAAATCTGTTATTGTATTGGAATGCACATTCTCACTATTACA
Found at i:2848707 original size:22 final size:21
Alignment explanation
Indices: 2848681--2848724 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2848671 AACTCTGAAC
*
2848681 AAAAATAATAAAATAAATATAA
1 AAAAATAACAAAATAAAT-TAA
*
2848703 AAAAATACCAAAATAAATTAA
1 AAAAATAACAAAATAAATTAA
2848724 A
1 A
2848725 CCCATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAATAACAAAATAAATTAA
Found at i:2849430 original size:29 final size:30
Alignment explanation
Indices: 2849393--2849459 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
2849383 AAGTTGTGGA
* * *
2849393 TTTAATCTTTGTACT-TT-AATTTGGTTAAT
1 TTTAGTCTTTGTACTCTTCAA-TTAGTCAAT
2849422 TTTAGTCTTTGTACTCTTCAATTAGTCAAT
1 TTTAGTCTTTGTACTCTTCAATTAGTCAAT
2849452 TTTAGTCT
1 TTTAGTCT
2849460 CTACACTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 14 0.42
30 17 0.52
31 2 0.06
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.55
Consensus pattern (30 bp):
TTTAGTCTTTGTACTCTTCAATTAGTCAAT
Found at i:2850156 original size:85 final size:85
Alignment explanation
Indices: 2850011--2850181 Score: 297
Period size: 85 Copynumber: 2.0 Consensus size: 85
2850001 TGTCACTTTC
* *
2850011 TTAATCACTAAAACCTAGTACTACTGTTTATGTCTGAACATTTGGGCCTTCTTTAGACATGTTGC
1 TTAATCACTAAAACCTAGTACTACTGTTTACGTCTGAACATTTGGGCCTTCTTTAAACATGTTGC
2850076 AGCTTGAACAATGATAGAAT
66 AGCTTGAACAATGATAGAAT
* * *
2850096 TTAATCGCTAAAACCTAGTACTTCTGTTTACGTCTGAACCTTTGGGCCTTCTTTAAACATGTTGC
1 TTAATCACTAAAACCTAGTACTACTGTTTACGTCTGAACATTTGGGCCTTCTTTAAACATGTTGC
2850161 AGCTTGAACAATGATAGAAT
66 AGCTTGAACAATGATAGAAT
2850181 T
1 T
2850182 GGGCTATTGT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (85 bp):
TTAATCACTAAAACCTAGTACTACTGTTTACGTCTGAACATTTGGGCCTTCTTTAAACATGTTGC
AGCTTGAACAATGATAGAAT
Found at i:2855450 original size:31 final size:29
Alignment explanation
Indices: 2855410--2855473 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
2855400 AGCTATCAGA
* *
2855410 AAATGATTTTTTTAAAACAATTTAGTGATTT
1 AAATAATTTTTTT-AAACAATTTAATGA-TT
*
2855441 AAATAATTTTTTTAAATAATTTAATGATT
1 AAATAATTTTTTTAAACAATTTAATGATT
2855470 AAAT
1 AAAT
2855474 TGTAACTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 6 0.20
30 12 0.40
31 12 0.40
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (29 bp):
AAATAATTTTTTTAAACAATTTAATGATT
Found at i:2855456 original size:13 final size:13
Alignment explanation
Indices: 2855438--2855462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2855428 AATTTAGTGA
2855438 TTTAAATAATTTT
1 TTTAAATAATTTT
2855451 TTTAAATAATTT
1 TTTAAATAATTT
2855463 AATGATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAAATAATTTT
Found at i:2856960 original size:9 final size:9
Alignment explanation
Indices: 2856946--2856976 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
2856936 ACCAGCCTAT
2856946 ATTTTTTAA
1 ATTTTTTAA
2856955 ATTTTTTAA
1 ATTTTTTAA
2856964 ATTTTTTAA
1 ATTTTTTAA
2856973 ATTT
1 ATTT
2856977 AAATTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:2860390 original size:15 final size:15
Alignment explanation
Indices: 2860370--2860400 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2860360 AATAGTTTCT
2860370 ATACATTAATTAATG
1 ATACATTAATTAATG
2860385 ATACATTAATTAATG
1 ATACATTAATTAATG
2860400 A
1 A
2860401 ATTAATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
ATACATTAATTAATG
Found at i:2862116 original size:24 final size:23
Alignment explanation
Indices: 2862084--2862134 Score: 93
Period size: 24 Copynumber: 2.2 Consensus size: 23
2862074 TTTTGCAAAA
2862084 TTTTATTAAAATCTCCTCTCTCT
1 TTTTATTAAAATCTCCTCTCTCT
2862107 TTTTAATTAAAATCTCCTCTCTCT
1 TTTT-ATTAAAATCTCCTCTCTCT
2862131 TTTT
1 TTTT
2862135 TGGAAATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTATTAAAATCTCCTCTCTCT
Found at i:2879141 original size:22 final size:21
Alignment explanation
Indices: 2879116--2879171 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
2879106 TAATGTACTA
2879116 TAAAAATA-ATACATTTCATGTT
1 TAAAAATATATA-ATTTCAT-TT
* *
2879138 TAAAAATATTTAATTTGATTT
1 TAAAAATATATAATTTCATTT
2879159 TAAAAATAT-TAAT
1 TAAAAATATATAAT
2879172 AACAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 4 0.13
21 11 0.35
22 14 0.45
23 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
TAAAAATATATAATTTCATTT
Found at i:2885873 original size:29 final size:30
Alignment explanation
Indices: 2885841--2885899 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2885831 AAAACTGTAC
*
2885841 TTTAGCCCTCT-AAAATTATAAAAATATAG
1 TTTAACCCTCTAAAAATTATAAAAATATAG
* *
2885870 TTTAATCCTTTAAAAATTATAAAAATATAG
1 TTTAACCCTCTAAAAATTATAAAAATATAG
2885900 AATATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (30 bp):
TTTAACCCTCTAAAAATTATAAAAATATAG
Found at i:2893601 original size:2 final size:2
Alignment explanation
Indices: 2893594--2893622 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2893584 AAAACACATA
2893594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2893623 AAAGCTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2894461 original size:25 final size:25
Alignment explanation
Indices: 2894424--2894475 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
2894414 TTTAATGTTA
*
2894424 AATATTTTATTTA-GTTATTAA-AT
1 AATATTTTATTTATGTAATTAATAT
2894447 AATATATTTATTTTATGTAATTAATAT
1 AATAT-TTTA-TTTATGTAATTAATAT
2894474 AA
1 AA
2894476 AATAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 4 0.17
25 4 0.17
26 7 0.29
27 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
AATATTTTATTTATGTAATTAATAT
Found at i:2895843 original size:21 final size:22
Alignment explanation
Indices: 2895805--2895846 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2895795 TTAAAAAAAA
*
2895805 AATATTTATATTATTTTATACT
1 AATATTTATATAATTTTATACT
2895827 AATATTTA-ATAATTTTATAC
1 AATATTTATATAATTTTATAC
2895847 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATTTATATAATTTTATACT
Found at i:2907287 original size:24 final size:24
Alignment explanation
Indices: 2907238--2907287 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
2907228 TAAAATAAAA
* *
2907238 TAAAATAAAATTATTTTTATTTTT
1 TAAAATAAAATTATATTTATTGTT
2907262 TAAAAT-AAATTATATTTATATGTT
1 TAAAATAAAATTATATTTAT-TGTT
2907286 TA
1 TA
2907288 TAAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TAAAATAAAATTATATTTATTGTT
Found at i:2910848 original size:13 final size:13
Alignment explanation
Indices: 2910830--2910854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2910820 ATATATTTAT
2910830 TTGGCATACATTA
1 TTGGCATACATTA
2910843 TTGGCATACATT
1 TTGGCATACATT
2910855 GTTAGTATTT
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:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGGCATACATTA
Found at i:2920370 original size:22 final size:22
Alignment explanation
Indices: 2920303--2920370 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
2920293 AAACTTAAAA
*
2920303 ATTATATTAAAATATAATAAATATT
1 ATTATATT-GAATAT-AT-AATATT
* * *
2920328 ATTATA-AGGATATTATTATATT
1 ATTATATTGAATA-TATAATATT
2920350 ATTATATTGAATATATAATAT
1 ATTATATTGAATATATAATAT
2920371 ATATCATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
22 18 0.53
23 9 0.26
24 1 0.03
25 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTATATTGAATATATAATATT
Found at i:2934110 original size:11 final size:11
Alignment explanation
Indices: 2934025--2934122 Score: 58
Period size: 11 Copynumber: 8.6 Consensus size: 11
2934015 AAAAATAAAT
*
2934025 ATATACACATA
1 ATATATACATA
*
2934036 ATATATACGTA
1 ATATATACATA
2934047 ATATAGTAC-TA
1 ATATA-TACATA
* *
2934058 AGAATATATATA
1 A-TATATACATA
*
2934070 TACATATACAATA
1 -ATATATAC-ATA
* *
2934083 TAGTATTTA-AAA
1 -A-TATATACATA
2934095 ATATATACATA
1 ATATATACATA
2934106 ATATATACAT-
1 ATATATACATA
2934116 ATATATA
1 ATATATA
2934123 AAATAAATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 15
0.73 0.12 0.16
Matches are distributed among these distances:
10 12 0.17
11 32 0.46
12 15 0.22
13 6 0.09
14 4 0.06
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (11 bp):
ATATATACATA
Found at i:2934824 original size:3 final size:3
Alignment explanation
Indices: 2934818--2934861 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
2934808 TTATACAAAT
* **
2934818 ATA ATA ATAA ATA ATA ATA ATA ACA ATA ATA GCA ATA ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2934862 AGATGTAAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:2936017 original size:36 final size:36
Alignment explanation
Indices: 2935970--2936052 Score: 157
Period size: 36 Copynumber: 2.3 Consensus size: 36
2935960 GACCCTCAGA
*
2935970 GGCGTGGTGGCGTGCGTGGTGGCTCCGCATGCAAAG
1 GGCGTGGTGGCGTGCGCGGTGGCTCCGCATGCAAAG
2936006 GGCGTGGTGGCGTGCGCGGTGGCTCCGCATGCAAAG
1 GGCGTGGTGGCGTGCGCGGTGGCTCCGCATGCAAAG
2936042 GGCGTGGTGGC
1 GGCGTGGTGGC
2936053 CGACATGGTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.10, C:0.23, G:0.49, T:0.18
Consensus pattern (36 bp):
GGCGTGGTGGCGTGCGCGGTGGCTCCGCATGCAAAG
Found at i:2936063 original size:36 final size:36
Alignment explanation
Indices: 2935970--2936064 Score: 129
Period size: 36 Copynumber: 2.6 Consensus size: 36
2935960 GACCCTCAGA
* *
2935970 GGCGTGGTGGCGTGCGTGGTGGCTCCGCATGCAAAG
1 GGCGTGGTGGCGTACATGGTGGCTCCGCATGCAAAG
* **
2936006 GGCGTGGTGGCGTGCGCGGTGGCTCCGCATGCAAAG
1 GGCGTGGTGGCGTACATGGTGGCTCCGCATGCAAAG
2936042 GGCGTGGTGGCCG-ACATGGTGGC
1 GGCGTGGTGG-CGTACATGGTGGC
2936065 ATGGAGAGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 52 0.96
37 2 0.04
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (36 bp):
GGCGTGGTGGCGTACATGGTGGCTCCGCATGCAAAG
Found at i:2940428 original size:10 final size:10
Alignment explanation
Indices: 2940413--2940438 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
2940403 TTTATTACGA
2940413 GGAATGGTTC
1 GGAATGGTTC
2940423 GGAATGGTTC
1 GGAATGGTTC
2940433 GGAATG
1 GGAATG
2940439 CCGGGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.42, T:0.27
Consensus pattern (10 bp):
GGAATGGTTC
Found at i:2940805 original size:33 final size:33
Alignment explanation
Indices: 2940763--2940943 Score: 191
Period size: 33 Copynumber: 6.0 Consensus size: 33
2940753 GGGGAGGCGC
2940763 TGATAAGTGTCGATTTCTTATCAATCTGGATTA
1 TGATAAGTGTCGATTTCTTATCAATCTGGATTA
2940796 TGATAAGTGTCGA-----T-T---TCTGGATTA
1 TGATAAGTGTCGATTTCTTATCAATCTGGATTA
*
2940820 TGATAAGTGTCGATTTCTTAGCAATCTGGATTA
1 TGATAAGTGTCGATTTCTTATCAATCTGGATTA
*
2940853 TGATAAGTGTCGA-----T-T---TCTGAATTA
1 TGATAAGTGTCGATTTCTTATCAATCTGGATTA
* *
2940877 TGATAAGTGTCAATTTCTTAGCAATCTGGATTA
1 TGATAAGTGTCGATTTCTTATCAATCTGGATTA
*
2940910 TGATAAGTGTCGATTTCTAATCAATCTGGATTA
1 TGATAAGTGTCGATTTCTTATCAATCTGGATTA
2940943 T
1 T
2940944 CTCCTAAAGA
Statistics
Matches: 121, Mismatches: 9, Indels: 36
0.73 0.05 0.22
Matches are distributed among these distances:
24 42 0.35
27 1 0.01
28 2 0.02
29 2 0.02
33 74 0.61
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (33 bp):
TGATAAGTGTCGATTTCTTATCAATCTGGATTA
Found at i:2940819 original size:24 final size:24
Alignment explanation
Indices: 2940787--2940837 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
2940777 TTCTTATCAA
2940787 TCTGGATTATGATAAGTGTCGATT
1 TCTGGATTATGATAAGTGTCGATT
2940811 TCTGGATTATGATAAGTGTCGATT
1 TCTGGATTATGATAAGTGTCGATT
2940835 TCT
1 TCT
2940838 TAGCAATCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (24 bp):
TCTGGATTATGATAAGTGTCGATT
Found at i:2940851 original size:57 final size:57
Alignment explanation
Indices: 2940763--2940927 Score: 303
Period size: 57 Copynumber: 2.9 Consensus size: 57
2940753 GGGGAGGCGC
* *
2940763 TGATAAGTGTCGATTTCTTATCAATCTGGATTATGATAAGTGTCGATTTCTGGATTA
1 TGATAAGTGTCGATTTCTTAGCAATCTGGATTATGATAAGTGTCGATTTCTGAATTA
2940820 TGATAAGTGTCGATTTCTTAGCAATCTGGATTATGATAAGTGTCGATTTCTGAATTA
1 TGATAAGTGTCGATTTCTTAGCAATCTGGATTATGATAAGTGTCGATTTCTGAATTA
*
2940877 TGATAAGTGTCAATTTCTTAGCAATCTGGATTATGATAAGTGTCGATTTCT
1 TGATAAGTGTCGATTTCTTAGCAATCTGGATTATGATAAGTGTCGATTTCT
2940928 AATCAATCTG
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 105 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (57 bp):
TGATAAGTGTCGATTTCTTAGCAATCTGGATTATGATAAGTGTCGATTTCTGAATTA
Found at i:2940876 original size:24 final size:24
Alignment explanation
Indices: 2940844--2940894 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
2940834 TTCTTAGCAA
* *
2940844 TCTGGATTATGATAAGTGTCGATT
1 TCTGAATTATGATAAGTGTCAATT
2940868 TCTGAATTATGATAAGTGTCAATT
1 TCTGAATTATGATAAGTGTCAATT
2940892 TCT
1 TCT
2940895 TAGCAATCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (24 bp):
TCTGAATTATGATAAGTGTCAATT
Found at i:2944524 original size:22 final size:21
Alignment explanation
Indices: 2944499--2944548 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
2944489 TCCTAGATTA
*
2944499 TTATTTTTATATATTTTATATT
1 TTATTTTTATATAGTTT-TATT
*
2944521 TTATTTTTTTTATAGTTTTATT
1 TTA-TTTTTATATAGTTTTATT
2944543 TTATTT
1 TTATTT
2944549 AGTTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 10 0.40
23 12 0.48
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (21 bp):
TTATTTTTATATAGTTTTATT
Done.