Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 18 of 54
Found at i:7999713 original size:2 final size:2
Alignment explanation
Indices: 7999706--7999733 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7999696 GNTTATTAAT
7999706 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7999734 GCATCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8002102 original size:26 final size:26
Alignment explanation
Indices: 8002070--8002123 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
8002060 TTTCCAACAG
8002070 ATTTCCAACGGAA-ATTTCCATTGGAA
1 ATTTCCAACGGAATA-TTCCATTGGAA
*
8002096 ATTTCCAACGGAATATTCCGTTGGAA
1 ATTTCCAACGGAATATTCCATTGGAA
8002122 AT
1 AT
8002124 CCGTCGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (26 bp):
ATTTCCAACGGAATATTCCATTGGAA
Found at i:8002114 original size:13 final size:13
Alignment explanation
Indices: 8002070--8002108 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
8002060 TTTCCAACAG
8002070 ATTTCCAACGGAA
1 ATTTCCAACGGAA
**
8002083 ATTTCCATTGGAA
1 ATTTCCAACGGAA
8002096 ATTTCCAACGGAA
1 ATTTCCAACGGAA
8002109 TATTCCGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (13 bp):
ATTTCCAACGGAA
Found at i:8002230 original size:63 final size:64
Alignment explanation
Indices: 8002160--8002325 Score: 194
Period size: 74 Copynumber: 2.5 Consensus size: 64
8002150 ATGTGTAATA
8002160 TTTACAGTTTCCAAC-GAAATTTTCTGTTGGAGA-ATAAAACTTTAAAAAAAAATTTACAATCTT
1 TTTACAGTTTCCAACGGAAATTTTCTGTTGGA-ACATAAAACTTTAAAAAAAAATTTACAATCTT
* *
8002223 TTTACAGTTTCCAACGGATTTCCAATGGAAAATTCTGTTGGAACATAAAACTTTAAAAAAAATTT
1 TTTACAGTTTCCAACGGA-----AAT-----TTTCTGTTGGAACATAAAACTTTAAAAAAAAATT
8002288 TACAATCTT
56 TACAATCTT
8002297 TTTACAGTTTCCAACGGAAATTTT-TGTTG
1 TTTACAGTTTCCAACGGAAATTTTCTGTTG
8002326 AAAATCCGTT
Statistics
Matches: 88, Mismatches: 3, Indels: 24
0.77 0.03 0.21
Matches are distributed among these distances:
63 20 0.23
64 4 0.05
69 6 0.07
73 1 0.01
74 57 0.65
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (64 bp):
TTTACAGTTTCCAACGGAAATTTTCTGTTGGAACATAAAACTTTAAAAAAAAATTTACAATCTT
Found at i:8002879 original size:2 final size:2
Alignment explanation
Indices: 8002872--8002909 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
8002862 AGTCTTGATG
*
8002872 TA TA TA TA TA TA TA TA TA -A TA GTA TA AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
8002910 AACAATTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:8003014 original size:21 final size:24
Alignment explanation
Indices: 8002990--8003033 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
8002980 GTGAGGATAT
8002990 AATTT-ATGTA-A-GATTATAATA
1 AATTTCATGTAGATGATTATAATA
*
8003011 AATTTCATTTAGATGATTATAAT
1 AATTTCATGTAGATGATTATAAT
8003034 TATTAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 1 0.05
24 9 0.47
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (24 bp):
AATTTCATGTAGATGATTATAATA
Found at i:8003069 original size:2 final size:2
Alignment explanation
Indices: 8003062--8003090 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8003052 CAAATCGTAC
8003062 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
8003091 CACACACTTT
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:8004290 original size:91 final size:88
Alignment explanation
Indices: 8004024--8004302 Score: 310
Period size: 90 Copynumber: 3.1 Consensus size: 88
8004014 CTCTCAAGGC
* * *
8004024 CTTCATTTTCCAGCCGGTGACACAAGGCTGAAGCCCCAGCTCTCTCTAGAACCGACGGCACAAGA
1 CTTCCTTTTCCAGCCGGTGACACAAGGCCGAAGCCCCAGCTCTCTCTAGAACCGACGGCACAACA
* *
8004089 ACCTAGATCTGGTC-CGCTCTGGCTT
66 ACC-AGATCT--TCTCTCTCTCGCTT
* * ** * * * *
8004114 CTTCCTTTTTCAGTCGACGACACAAGCCCGAAGCCCCAGCTCTCTCTAGAACTGGCGGCACAGCA
1 CTTCCTTTTCCAGCCGGTGACACAAGGCCGAAGCCCCAGCTCTCTCTAGAACCGACGGCACAACA
*
8004179 ACCCAGATCTTGTCTCTCTCGCTT
66 A-CCAGATCTTCTCTCTCTCGCTT
* * * *
8004203 CTTCCTTTTCCAACCGGTGACACAAGGCCGAATCGCCTCAGCTCTATCTAGAACCGACGGCATAA
1 CTTCCTTTTCCAGCCGGTGACACAAGGCCGAA--GCCCCAGCTCTCTCTAGAACCGACGGCACAA
*
8004268 CAACTCAGATATTCTCTCTCTCGCTT
64 CAAC-CAGATCTTCTCTCTCTCGCTT
8004294 CTT-CTTTTC
1 CTTCCTTTTC
8004303 GCCGGAAGCA
Statistics
Matches: 156, Mismatches: 28, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
88 1 0.01
89 35 0.22
90 68 0.44
91 52 0.33
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.26
Consensus pattern (88 bp):
CTTCCTTTTCCAGCCGGTGACACAAGGCCGAAGCCCCAGCTCTCTCTAGAACCGACGGCACAACA
ACCAGATCTTCTCTCTCTCGCTT
Found at i:8005343 original size:15 final size:16
Alignment explanation
Indices: 8005312--8005356 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
8005302 GTTCCCCATA
8005312 TATTT-ATTTT-TAGT
1 TATTTAATTTTATAGT
8005326 TATTTAATTTTATA-T
1 TATTTAATTTTATAGT
8005341 TATTTAATTTTA-AGT
1 TATTTAATTTTATAGT
8005356 T
1 T
8005357 TAAGATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.21
15 20 0.71
16 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
TATTTAATTTTATAGT
Found at i:8006190 original size:75 final size:74
Alignment explanation
Indices: 8006099--8006248 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 74
8006089 AATAATTTAT
8006099 ACTATAAGGGATACTTTGCAAAATATATGTAATTTTGAATATATACATATATATATATATATAAT
1 ACTATAAGGGATACTTTGCAAAATATATGTAATTTTGAATATATACATATATATATATATATAAT
8006164 ACATATTGG
66 ACATATTGG
8006173 ANCTATAAGGGATACTTTGCAAAATATATGTAATTTTGAATATATACATATATATATATATATAA
1 A-CTATAAGGGATACTTTGCAAAATATATGTAATTTTGAATATATACATATATATATATATATAA
8006238 TACATATTGG
65 TACATATTGG
8006248 A
1 A
8006249 ATGTAGGGTT
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 1 0.01
75 74 0.99
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (74 bp):
ACTATAAGGGATACTTTGCAAAATATATGTAATTTTGAATATATACATATATATATATATATAAT
ACATATTGG
Found at i:8010038 original size:6 final size:6
Alignment explanation
Indices: 8010024--8010085 Score: 97
Period size: 6 Copynumber: 10.3 Consensus size: 6
8010014 AGAGAAGATA
* * *
8010024 ATGAAG ATGATG ATGAAG ATGAAG ATGAAG ATGAAT ACGAAG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
8010072 ATGAAG ATGAAG AT
1 ATGAAG ATGAAG AT
8010086 CATGTGGAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.48, C:0.02, G:0.31, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:8011570 original size:2 final size:2
Alignment explanation
Indices: 8011565--8011607 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
8011555 AGAATAAAAA
* *
8011565 AT AT AT AT AT GT AT AT AT AT AT NAT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
8011608 CGATTATGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8011593 original size:21 final size:20
Alignment explanation
Indices: 8011565--8011607 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
8011555 AGAATAAAAA
*
8011565 ATATATATATGTATATATAT
1 ATATATATATATATATATAT
*
8011585 ATNATATATATATATTTATAT
1 AT-ATATATATATATATATAT
8011606 AT
1 AT
8011608 CGATTATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATATATATATATATATAT
Found at i:8012586 original size:31 final size:31
Alignment explanation
Indices: 8012546--8012604 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
8012536 TAGGTCAAAC
8012546 TATTACCAACAGAAAATTCCGTTGGAAAGCA
1 TATTACCAACAGAAAATTCCGTTGGAAAGCA
* * *
8012577 TATTTCCAACAGAAATTTTCGTTGGAAA
1 TATTACCAACAGAAAATTCCGTTGGAAA
8012605 TGCCAACCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (31 bp):
TATTACCAACAGAAAATTCCGTTGGAAAGCA
Found at i:8012666 original size:45 final size:43
Alignment explanation
Indices: 8012617--8012709 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 43
8012607 CCAACCGAAT
* *
8012617 TTTCCGTTGGAAATATG-TTTTCCAATGGAATTTTTCGTTGGAAAC
1 TTTCCGTTGG-AAT-TGCTTTTCCAACGGAAATTTT-GTTGGAAAC
*
8012662 TTTCCGTTGGAATTGCCTTTTCCAACGGAAATTTTGTTGGAAAT
1 TTTCCGTTGGAATTG-CTTTTCCAACGGAAATTTTGTTGGAAAC
8012706 TTTC
1 TTTC
8012710 AACGGATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 2 0.05
44 15 0.35
45 26 0.60
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (43 bp):
TTTCCGTTGGAATTGCTTTTCCAACGGAAATTTTGTTGGAAAC
Found at i:8014625 original size:19 final size:18
Alignment explanation
Indices: 8014601--8014639 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8014591 CACCTTCTTC
8014601 TTCTTTCCTTTTTTCCAAT
1 TTCTTT-CTTTTTTCCAAT
* *
8014620 TTCTTTTTTTTTTTCAAT
1 TTCTTTCTTTTTTCCAAT
8014638 TT
1 TT
8014640 TGCACCGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (18 bp):
TTCTTTCTTTTTTCCAAT
Found at i:8019378 original size:28 final size:28
Alignment explanation
Indices: 8019334--8019391 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
8019324 AGTAGTCCAT
* * *
8019334 GAGTCAATAGAATGAAATAACTTAGAGA
1 GAGTCAATAGAAGGAAAAAACATAGAGA
8019362 GAGTCAATAGAAGGAAAAAACATAGAGA
1 GAGTCAATAGAAGGAAAAAACATAGAGA
8019390 GA
1 GA
8019392 TAGTGTACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.07, G:0.24, T:0.16
Consensus pattern (28 bp):
GAGTCAATAGAAGGAAAAAACATAGAGA
Found at i:8020629 original size:72 final size:71
Alignment explanation
Indices: 8020409--8020637 Score: 180
Period size: 72 Copynumber: 3.2 Consensus size: 71
8020399 GAGTTGCAGC
*
8020409 GAAGA-AGTGTTGACTGGAATGGACGGTATCGAATCAGAGAGTTTGTTGTTGCTTAGATCAAGTT
1 GAAGATAG-GTTGACTGGAATGGA-GGTATCGAATCAGAGAGTTTGTTGTTGCTTAGATCAAGTA
8020473 CTTGCAAT
64 CTTGCAAT
* * * * * * * * *** *** *
8020481 GAAGATAGGTTGAAAATTG-AGGGAGGTATGGAACCTGA-AATCTGATTAAAGGAGAGGTCAA-T
1 GAAGATAGGTTG--ACTGGAATGGAGGTATCGAATCAGAGAGTTTG-TTGTTGCTTAGATCAAGT
* **
8020543 GAGTTGCAGC
63 -ACTTGCAAT
8020553 GAAGA-AGTGTTGACTGGAATGGAGGGTATCGAATCAGAGAGTTTGTTGTTGCTTAGATCAAGTA
1 GAAGATAG-GTTGACTGGAATGGA-GGTATCGAATCAGAGAGTTTGTTGTTGCTTAGATCAAGTA
8020617 CTTGCAAT
64 CTTGCAAT
8020625 GAAGATAGGTTGA
1 GAAGATAGGTTGA
8020638 AAATTGAGGG
Statistics
Matches: 109, Mismatches: 37, Indels: 22
0.65 0.22 0.13
Matches are distributed among these distances:
70 3 0.03
71 11 0.10
72 79 0.72
73 13 0.12
74 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (71 bp):
GAAGATAGGTTGACTGGAATGGAGGTATCGAATCAGAGAGTTTGTTGTTGCTTAGATCAAGTACT
TGCAAT
Found at i:8020640 original size:144 final size:144
Alignment explanation
Indices: 8020380--8020672 Score: 550
Period size: 144 Copynumber: 2.0 Consensus size: 144
8020370 CCACTGAGAA
*
8020380 GATTAACGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGACTGGAATGGACGGTATCGAATCA
1 GATTAAAGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGACTGGAATGGACGGTATCGAATCA
* *
8020445 GAGAGTTTGTTGTTGCTTAGATCAAGTTCTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAT
66 GAGAGTTTGTTGTTGCTTAGATCAAGTACTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAC
8020510 GGAACCTGAAATCT
131 GGAACCTGAAATCT
*
8020524 GATTAAAGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGACTGGAATGGAGGGTATCGAATCA
1 GATTAAAGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGACTGGAATGGACGGTATCGAATCA
8020589 GAGAGTTTGTTGTTGCTTAGATCAAGTACTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAC
66 GAGAGTTTGTTGTTGCTTAGATCAAGTACTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAC
8020654 GGAACCTGAAATCT
131 GGAACCTGAAATCT
8020668 GATTA
1 GATTA
8020673 TAATCTAAGA
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 145 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (144 bp):
GATTAAAGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGACTGGAATGGACGGTATCGAATCA
GAGAGTTTGTTGTTGCTTAGATCAAGTACTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAC
GGAACCTGAAATCT
Found at i:8023051 original size:60 final size:61
Alignment explanation
Indices: 8022955--8023084 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 61
8022945 AAGAAAAACG
* * *
8022955 TTTAAGCA-TTTTGAGCATTTTGGAATAGTTTTTGATACATGAA-AAAAACCTATGAGCAT
1 TTTAAGCATTTTTAAACATTTTGGAATAGTTTTTGATACATGAAGAAAAACCTATGAACAT
* * * *
8023014 TTTAAGCATTTTTAAACATTTTGGAGT-GTTTTTTGATATATGAAGAAAAACTTTTGAACAT
1 TTTAAGCATTTTTAAACATTTTGGAATAG-TTTTTGATACATGAAGAAAAACCTATGAACAT
*
8023075 TTTGAGCATT
1 TTTAAGCATT
8023085 CATATTCGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 9 0.15
60 29 0.48
61 22 0.37
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (61 bp):
TTTAAGCATTTTTAAACATTTTGGAATAGTTTTTGATACATGAAGAAAAACCTATGAACAT
Found at i:8023300 original size:26 final size:26
Alignment explanation
Indices: 8023242--8023524 Score: 187
Period size: 26 Copynumber: 11.7 Consensus size: 26
8023232 ACTGACTTTG
* * * *
8023242 GGCATTACGTGACTAATTTTTTATAA
1 GGCATTGCGTGACTAGTTTCTGATAA
* * * *
8023268 AGTATTGCGTGACTAGTTTCTAACAA
1 GGCATTGCGTGACTAGTTTCTGATAA
* *
8023294 GGCATTGCGTGACAAG--T-TAAT-A
1 GGCATTGCGTGACTAGTTTCTGATAA
* *
8023316 GGCATTGCATGACTTGTTTCTGATAA
1 GGCATTGCGTGACTAGTTTCTGATAA
* *
8023342 GGTATTGCATGACTAG--T-TGAT-A
1 GGCATTGCGTGACTAGTTTCTGATAA
* *
8023364 GGTATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTCTGATAA
8023390 GGCATTGCGTGACTAGTTTCTGATAA
1 GGCATTGCGTGACTAGTTTCTGATAA
*
8023416 GGCATTGCGTGACTAG--T-TGGT-A
1 GGCATTGCGTGACTAGTTTCTGATAA
* * *
8023438 GGCATTGCATGACTTG-TT-AG-TAA
1 GGCATTGCGTGACTAGTTTCTGATAA
* *
8023461 GGCATTGCGTGACTTG-TT-AG-TAA
1 GGCATTGCGTGACTAGTTTCTGATAA
* *
8023484 GGCATTGCATGAC----TTCTTAGTAA
1 GGCATTGCGTGACTAGTTTCTGA-TAA
8023507 GGCATTGCGTGACTAGTT
1 GGCATTGCGTGACTAGTT
8023525 ATTAAAGCAT
Statistics
Matches: 211, Mismatches: 29, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
20 2 0.01
22 46 0.22
23 62 0.29
24 5 0.02
25 7 0.03
26 88 0.42
27 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (26 bp):
GGCATTGCGTGACTAGTTTCTGATAA
Found at i:8023335 original size:48 final size:48
Alignment explanation
Indices: 8023271--8023524 Score: 216
Period size: 48 Copynumber: 5.3 Consensus size: 48
8023261 TTTATAAAGT
* * *
8023271 ATTGCGTGACTAGTTTCTAACAAGGCATTGCGTGACAAGTTAATAGGC
1 ATTGCGTGACTAGTTTCTGATAAGGCATTGCGTGACTAGTTAATAGGC
* * * * * *
8023319 ATTGCATGACTTGTTTCTGATAAGGTATTGCATGACTAGTTGATAGGT
1 ATTGCGTGACTAGTTTCTGATAAGGCATTGCGTGACTAGTTAATAGGC
* *
8023367 ATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAGGC
1 ATTGCGTGACTAGTTTCTGATAAGGCATTGCGTGACTAG--T-TAAT-AGGC
* * * *
8023419 ATTGCGTGACTAG--T-TGGT-AGGCATTGCATGACTTGTTAGTAAGGC
1 ATTGCGTGACTAGTTTCTGATAAGGCATTGCGTGACTAGTTAAT-AGGC
* * * ** *
8023464 ATTGCGTGACTTG-TT-AG-TAAGGCATTGCATGACTTCTTAGTAAGGC
1 ATTGCGTGACTAGTTTCTGATAAGGCATTGCGTGACTAGTTAAT-AGGC
8023510 ATTGCGTGACTAGTT
1 ATTGCGTGACTAGTT
8023525 ATTAAAGCAT
Statistics
Matches: 175, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
45 20 0.11
46 41 0.23
47 1 0.01
48 88 0.50
49 3 0.02
50 2 0.01
51 4 0.02
52 16 0.09
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (48 bp):
ATTGCGTGACTAGTTTCTGATAAGGCATTGCGTGACTAGTTAATAGGC
Found at i:8023393 original size:74 final size:73
Alignment explanation
Indices: 8023293--8023544 Score: 249
Period size: 74 Copynumber: 3.6 Consensus size: 73
8023283 GTTTCTAACA
* * * *
8023293 AGGCATTGCGTGACAAG--TTAAT-AGGCATTGCATGACTTGTTTCTGATAAGGTATTGCATGAC
1 AGGCATTGCGTGACTAGTTTTAGTAAGGCATTGCGTGACTTGTTTCTGATAAGGCATTGCATGAC
8023355 TAGTTGAT
66 TAGTTGAT
* * * *
8023363 AGGTATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCTGATAAGGCATTGCGTGA
1 AGGCATTGCGTGACTAGTTTTAG-TAAGGCATTGCGTGACTTGTTTCTGATAAGGCATTGCATGA
*
8023428 CTAGTTGGT
65 CTAGTTGAT
* * *
8023437 AGGCATTGCATGACT--TGTTAGTAAGGCATTGCGTGACTTG-TT-AG-TAAGGCATTGCATGAC
1 AGGCATTGCGTGACTAGTTTTAGTAAGGCATTGCGTGACTTGTTTCTGATAAGGCATTGCATGAC
**
8023497 TTCTT-AGT
66 TAGTTGA-T
*
8023505 AAGGCATTGCGTGACTAGTTATTA--AA-GCATTGTGTGACTT
1 -AGGCATTGCGTGACTAGTT-TTAGTAAGGCATTGCGTGACTT
8023545 AGGTATTACT
Statistics
Matches: 151, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
68 19 0.13
69 28 0.19
70 19 0.13
71 19 0.13
72 9 0.06
73 1 0.01
74 56 0.37
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (73 bp):
AGGCATTGCGTGACTAGTTTTAGTAAGGCATTGCGTGACTTGTTTCTGATAAGGCATTGCATGAC
TAGTTGAT
Found at i:8023467 original size:23 final size:23
Alignment explanation
Indices: 8023292--8023543 Score: 206
Period size: 23 Copynumber: 10.7 Consensus size: 23
8023282 AGTTTCTAAC
* *
8023292 AAGGCATTGCGTGACAAGTTAAT
1 AAGGCATTGCGTGACTAGTTAGT
* * *
8023315 -AGGCATTGCATGACTTGTTTCTGAT
1 AAGGCATTGCGTGACTAG-TT-AG-T
* *
8023340 AAGGTATTGCATGACTAGTT-G-
1 AAGGCATTGCGTGACTAGTTAGT
* *
8023361 ATAGGTATTGCGTGACTAGTTTTTGAT
1 A-AGGCATTGCGTGACTAG--TTAG-T
*
8023388 AAGGCATTGCGTGACTAGTTTCTGAT
1 AAGGCATTGCGTGACTAG-TT-AG-T
*
8023414 AAGGCATTGCGTGACTAGTTGGT
1 AAGGCATTGCGTGACTAGTTAGT
* *
8023437 -AGGCATTGCATGACTTGTTAGT
1 AAGGCATTGCGTGACTAGTTAGT
*
8023459 AAGGCATTGCGTGACTTGTTAGT
1 AAGGCATTGCGTGACTAGTTAGT
* **
8023482 AAGGCATTGCATGACTTCTTAGT
1 AAGGCATTGCGTGACTAGTTAGT
*
8023505 AAGGCATTGCGTGACTAGTTATT
1 AAGGCATTGCGTGACTAGTTAGT
* *
8023528 AAAGCATTGTGTGACT
1 AAGGCATTGCGTGACT
8023544 TAGGTATTAC
Statistics
Matches: 195, Mismatches: 22, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
21 1 0.01
22 49 0.25
23 79 0.41
24 3 0.02
25 9 0.05
26 53 0.27
27 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (23 bp):
AAGGCATTGCGTGACTAGTTAGT
Found at i:8024448 original size:11 final size:10
Alignment explanation
Indices: 8024413--8024471 Score: 52
Period size: 11 Copynumber: 5.8 Consensus size: 10
8024403 TGCTAATGCA
8024413 ATTATCTATTT
1 ATTAT-TATTT
8024424 -TT-TTATTT
1 ATTATTATTT
8024432 ATTATTATTT
1 ATTATTATTT
8024442 AATTATTATTGT
1 -ATTATTATT-T
8024454 CATT-TTATTT
1 -ATTATTATTT
*
8024464 TTTATTAT
1 ATTATTAT
8024472 CACATTTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 5 0.12
9 5 0.12
10 13 0.32
11 14 0.34
12 4 0.10
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTATTATTT
Found at i:8024786 original size:11 final size:11
Alignment explanation
Indices: 8024773--8024803 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
8024763 TATTTGTTTA
8024773 TTTATTAGTTAT
1 TTTATTA-TTAT
8024785 TTTATTATTAT
1 TTTATTATTAT
8024796 TTTATTAT
1 TTTATTAT
8024804 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:8026154 original size:11 final size:11
Alignment explanation
Indices: 8026124--8026167 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
8026114 TTTATTTTCA
8026124 TTATT-TTTATT
1 TTATTGTTTA-T
*
8026135 TTTTTGTTTAT
1 TTATTGTTTAT
8026146 TTATTGTTTAT
1 TTATTGTTTAT
8026157 TTATTGTTTAT
1 TTATTGTTTAT
8026168 AAAATTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 26 0.87
12 4 0.13
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (11 bp):
TTATTGTTTAT
Found at i:8026231 original size:22 final size:22
Alignment explanation
Indices: 8026199--8026275 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
8026189 TAGTGTCTAC
* * *
8026199 AAAAACTAATCACGTAATGCCT
1 AAAAACCAATCACGAAATGCTT
8026221 AAAAACCAATCACGAAATGCTT
1 AAAAACCAATCACGAAATGCTT
* * * *
8026243 AAAAACGAATCTCGCAATACTT
1 AAAAACCAATCACGAAATGCTT
8026265 AAAAACCAATC
1 AAAAACCAATC
8026276 TAACTAATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.19
Consensus pattern (22 bp):
AAAAACCAATCACGAAATGCTT
Found at i:8027306 original size:16 final size:16
Alignment explanation
Indices: 8027285--8027316 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8027275 GAATCCAAAC
*
8027285 ACTAAATGCAGAAAAA
1 ACTAAATACAGAAAAA
8027301 ACTAAATACAGAAAAA
1 ACTAAATACAGAAAAA
8027317 GCAATCGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.12, G:0.09, T:0.12
Consensus pattern (16 bp):
ACTAAATACAGAAAAA
Found at i:8041657 original size:20 final size:20
Alignment explanation
Indices: 8041620--8041657 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8041610 TTTTTATTAT
*
8041620 TTTCTTACCTTTCTTTCTCG
1 TTTCTTACCTCTCTTTCTCG
8041640 TTTCTT-CCTCTCTCTTCT
1 TTTCTTACCTCTCT-TTCT
8041658 ACTCGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.03, C:0.34, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTCTTACCTCTCTTTCTCG
Found at i:8050646 original size:28 final size:28
Alignment explanation
Indices: 8050602--8050659 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
8050592 AGTAGTCCAT
* * *
8050602 GAGTCAATAGAATGAAATAACTTAGAGA
1 GAGTCAATAGAAGGAAAAAACATAGAGA
8050630 GAGTCAATAGAAGGAAAAAACATAGAGA
1 GAGTCAATAGAAGGAAAAAACATAGAGA
8050658 GA
1 GA
8050660 TAGTGTACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.07, G:0.24, T:0.16
Consensus pattern (28 bp):
GAGTCAATAGAAGGAAAAAACATAGAGA
Found at i:8051897 original size:72 final size:71
Alignment explanation
Indices: 8051677--8051906 Score: 166
Period size: 72 Copynumber: 3.2 Consensus size: 71
8051667 GAGTTGCAGC
* * * *
8051677 GAAGA-AGTGTTGACTGGAATGGACGGTATCGAATCAGAGAGTTTGTTGTTGCTTAGATCAAGTA
1 GAAGATAG-GTTGAATGGAATGGA-GGTATCGAAACAGAAAGTTTGTTGTTACTTAGATCAAGTA
8051741 CTTGCAAT
64 CTTGCAAT
* * * * * * * * ***
8051749 GAAGATAGGTTGAAAATTG-AGGGAGGTATGGAACCTGAAA-TCTGAT-TAAAGGAGAGGTCAA-
1 GAAGATAGGTTG--AATGGAATGGAGGTATCGAAACAGAAAGTTTGTTGTTACTTAGA--TCAAG
* **
8051810 TGAGTTGCAGC
62 T-ACTTGCAAT
*
8051821 GAAGA-AGTGTTGAGTGGAATGGAGGGTATCGAAACAGAAAGTTTGTTGTTACTTAGATCAAGTA
1 GAAGATAG-GTTGAATGGAATGGA-GGTATCGAAACAGAAAGTTTGTTGTTACTTAGATCAAGTA
8051885 CTTGCAAT
64 CTTGCAAT
8051893 GAAGATAGGTTGAA
1 GAAGATAGGTTGAA
8051907 AATTGAGGGA
Statistics
Matches: 112, Mismatches: 33, Indels: 26
0.65 0.19 0.15
Matches are distributed among these distances:
70 7 0.06
71 11 0.10
72 73 0.65
73 13 0.12
74 8 0.07
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (71 bp):
GAAGATAGGTTGAATGGAATGGAGGTATCGAAACAGAAAGTTTGTTGTTACTTAGATCAAGTACT
TGCAAT
Found at i:8051908 original size:144 final size:144
Alignment explanation
Indices: 8051648--8051940 Score: 523
Period size: 144 Copynumber: 2.0 Consensus size: 144
8051638 CCACTGAGAA
* *
8051648 GATTAACGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGACTGGAATGGACGGTATCGAATCA
1 GATTAAAGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGACTGGAATGGACGGTATCGAAACA
* * *
8051713 GAGAGTTTGTTGTTGCTTAGATCAAGTACTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAT
66 GAAAGTTTGTTGTTACTTAGATCAAGTACTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAC
8051778 GGAACCTGAAATCT
131 GGAACCTGAAATCT
* *
8051792 GATTAAAGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGAGTGGAATGGAGGGTATCGAAACA
1 GATTAAAGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGACTGGAATGGACGGTATCGAAACA
8051857 GAAAGTTTGTTGTTACTTAGATCAAGTACTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAC
66 GAAAGTTTGTTGTTACTTAGATCAAGTACTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAC
8051922 GGAACCTGAAATCT
131 GGAACCTGAAATCT
8051936 GATTA
1 GATTA
8051941 TAATCTAAGA
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 142 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (144 bp):
GATTAAAGGAGAGGTCAATGAGTTGCAGCGAAGAAGTGTTGACTGGAATGGACGGTATCGAAACA
GAAAGTTTGTTGTTACTTAGATCAAGTACTTGCAATGAAGATAGGTTGAAAATTGAGGGAGGTAC
GGAACCTGAAATCT
Found at i:8054513 original size:22 final size:22
Alignment explanation
Indices: 8054488--8054546 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
8054478 GATTGATTTT
8054488 TAAGTATTGCGTGACT-AGTTAA
1 TAAGTATTGCGTGACTGA-TTAA
* *
8054510 TAAGATATTGCATGACTGATTGA
1 TAAG-TATTGCGTGACTGATTAA
*
8054533 TAGGTATTGCGTGA
1 TAAGTATTGCGTGA
8054547 TTGGCTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 13 0.42
23 17 0.55
24 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (22 bp):
TAAGTATTGCGTGACTGATTAA
Found at i:8054530 original size:45 final size:45
Alignment explanation
Indices: 8054448--8054546 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
8054438 ATTTTTACAC
* * * * * **
8054448 ATTGCATGACTAGTTGATAGGGAATTGTATGATTGATTTTTAAGT
1 ATTGCGTGACTAGTTAATAGAGAATTGCATGACTGATTGATAAGT
*
8054493 ATTGCGTGACTAGTTAATA-AGATATTGCATGACTGATTGATAGGT
1 ATTGCGTGACTAGTTAATAGAGA-ATTGCATGACTGATTGATAAGT
8054538 ATTGCGTGA
1 ATTGCGTGA
8054547 TTGGCTTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
44 2 0.04
45 43 0.96
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.38
Consensus pattern (45 bp):
ATTGCGTGACTAGTTAATAGAGAATTGCATGACTGATTGATAAGT
Found at i:8059226 original size:44 final size:44
Alignment explanation
Indices: 8059163--8059254 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
8059153 GATGCAATGG
*
8059163 CAAGCTATTAGAGACTGCCAAGCATAAAACCAACCTTATGGTGA
1 CAAGCTATTAAAGACTGCCAAGCATAAAACCAACCTTATGGTGA
8059207 CAAGCTATTAAAGACTGCCAAGCATAAAACCAACCTTATGGTGA
1 CAAGCTATTAAAGACTGCCAAGCATAAAACCAACCTTATGGTGA
8059251 CAAG
1 CAAG
8059255 TTTGACTACA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (44 bp):
CAAGCTATTAAAGACTGCCAAGCATAAAACCAACCTTATGGTGA
Found at i:8059334 original size:11 final size:11
Alignment explanation
Indices: 8059318--8059351 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
8059308 ATCCTTTTGC
8059318 CACCAATCTAG
1 CACCAATCTAG
8059329 CACCAATCTAG
1 CACCAATCTAG
8059340 CACCAATCTAG
1 CACCAATCTAG
8059351 C
1 C
8059352 TTTGTATCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.38, G:0.09, T:0.18
Consensus pattern (11 bp):
CACCAATCTAG
Found at i:8060710 original size:27 final size:27
Alignment explanation
Indices: 8060679--8060732 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
8060669 CAGATGATAA
* *
8060679 GATAAGATAGTTATCAAGATTCTAATT
1 GATAAGATAATTATCAAAATTCTAATT
*
8060706 GATAAGATAATTATCAAAATTTTAATT
1 GATAAGATAATTATCAAAATTCTAATT
8060733 TAGATAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (27 bp):
GATAAGATAATTATCAAAATTCTAATT
Found at i:8071151 original size:24 final size:24
Alignment explanation
Indices: 8071091--8071145 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
8071081 AAAGATAAGA
8071091 AAATAAAAATAAATAAAGACACAC
1 AAATAAAAATAAATAAAGACACAC
* * *
8071115 AAATAGAAGTAAATAAAGGCACAC
1 AAATAAAAATAAATAAAGACACAC
8071139 -AATAAAA
1 AAATAAAA
8071146 TCTAAAGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.67, C:0.11, G:0.09, T:0.13
Consensus pattern (24 bp):
AAATAAAAATAAATAAAGACACAC
Found at i:8100380 original size:30 final size:30
Alignment explanation
Indices: 8100338--8100394 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
8100328 TAATTACTTA
8100338 AATTTATTAAAATTTATACTTAAATCATTGT
1 AATTTATTAAAA-TTATACTTAAATCATTGT
*
8100369 AATTT-TTAAAATTATACTTTAATCAT
1 AATTTATTAAAATTATACTTAAATCAT
8100395 CAATGTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 14 0.56
30 6 0.24
31 5 0.20
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (30 bp):
AATTTATTAAAATTATACTTAAATCATTGT
Found at i:8100387 original size:29 final size:27
Alignment explanation
Indices: 8100338--8100419 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 27
8100328 TAATTACTTA
*
8100338 AATTTATTAAAATTTATACTTAAATCATTGT
1 AATTT-TTAAAA-TTATACTTAAATCA-T-C
*
8100369 AATTTTTAAAATTATACTTTAATCATC
1 AATTTTTAAAATTATACTTAAATCATC
8100396 AATGTTTATAAAATTATACATTAA
1 AAT-TTT-TAAAATTATAC-TTAA
8100420 TAATAATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
27 3 0.07
28 4 0.09
29 24 0.53
30 9 0.20
31 5 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (27 bp):
AATTTTTAAAATTATACTTAAATCATC
Found at i:8100425 original size:3 final size:3
Alignment explanation
Indices: 8100417--8100444 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8100407 AATTATACAT
8100417 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8100445 TATCAATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8100597 original size:47 final size:48
Alignment explanation
Indices: 8100537--8100661 Score: 173
Period size: 47 Copynumber: 2.6 Consensus size: 48
8100527 TTTTTCAATT
* * *
8100537 TTTAAAATAAAAAATTTTACTCTTTAGATGGA-GAATCCCCATCTCTAA
1 TTTAAAA-AAAAAAATTGACTCTTTAGATGGATGAATCCCCATCTCCAA
* *
8100585 TTTCAAAAAAAAAATTGACTCTTTAGAT-AATGAATCCCCATCTCCAA
1 TTTAAAAAAAAAAATTGACTCTTTAGATGGATGAATCCCCATCTCCAA
*
8100632 TTTAAAAAAAAAAAATGACTCTTTAGATGG
1 TTTAAAAAAAAAAATTGACTCTTTAGATGG
8100662 CTAGTTAGCC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 1 0.01
47 60 0.90
48 6 0.09
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (48 bp):
TTTAAAAAAAAAAATTGACTCTTTAGATGGATGAATCCCCATCTCCAA
Found at i:8108956 original size:77 final size:79
Alignment explanation
Indices: 8108793--8108960 Score: 234
Period size: 77 Copynumber: 2.1 Consensus size: 79
8108783 AATGTCATCT
* * *
8108793 ATTTTAATTTTAGGTGATTCATAAAGAATAGGAAATTAAATGTTTCCTACTTTAAAAGCAATTTC
1 ATTTTAATTTTAGGTCATTCATAAAGAATAGGAAATT--ATGTTTCCTACTTTAAAAGAAATTCC
*
8108858 TAAAATTAAGTATAGA
64 TAAAATTAAGGATAGA
8108874 ATTTTAATTTT-GAGTCATTCATAAAGAATAGGAAA-T-TGTTTCCTACTTTAAAAGAAATTCCT
1 ATTTTAATTTTAG-GTCATTCATAAAGAATAGGAAATTATGTTTCCTACTTTAAAAGAAATTCCT
*
8108936 AAAATTAAGGATAGT
65 AAAATTAAGGATAGA
*
8108951 GTTTTAATTT
1 ATTTTAATTT
8108961 GAAAAATTCA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
77 46 0.57
80 2 0.03
81 32 0.40
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (79 bp):
ATTTTAATTTTAGGTCATTCATAAAGAATAGGAAATTATGTTTCCTACTTTAAAAGAAATTCCTA
AAATTAAGGATAGA
Found at i:8113197 original size:27 final size:28
Alignment explanation
Indices: 8113159--8113250 Score: 118
Period size: 27 Copynumber: 3.4 Consensus size: 28
8113149 TGCAATTGTC
*
8113159 TATT-TTTTTATTTATTAT-TATTTAAT
1 TATTATTTTTATTTATTATATTTTTAAT
*
8113185 TATTATTTTTATTTTATTATATTTTTTAT
1 TATTATTTTTA-TTTATTATATTTTTAAT
* *
8113214 TATCATATTT-TTTATTATATTTTTAAT
1 TATTATTTTTATTTATTATATTTTTAAT
8113241 TATTATTTTT
1 TATTATTTTT
8113251 TCATACTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
26 4 0.07
27 30 0.54
28 8 0.14
29 14 0.25
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (28 bp):
TATTATTTTTATTTATTATATTTTTAAT
Found at i:8113213 original size:12 final size:12
Alignment explanation
Indices: 8113196--8113251 Score: 67
Period size: 12 Copynumber: 4.3 Consensus size: 12
8113186 ATTATTTTTA
8113196 TTTTATTATATT
1 TTTTATTATATT
8113208 TTTTATTATCATATT
1 TTTTA-T-T-ATATT
8113223 TTTTATTATATT
1 TTTTATTATATT
*
8113235 TTTAATTATTATT
1 TTTTATTA-TATT
8113248 TTTT
1 TTTT
8113252 CATACTTTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 17 0.45
13 9 0.24
14 2 0.05
15 10 0.26
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTATATT
Found at i:8113216 original size:15 final size:14
Alignment explanation
Indices: 8113159--8113251 Score: 93
Period size: 15 Copynumber: 6.6 Consensus size: 14
8113149 TGCAATTGTC
8113159 TATTTTTTTATTTAT
1 TATTTTTTTA-TTAT
* *
8113174 TATTATTTAATTAT
1 TATTTTTTTATTAT
8113188 TATTTTTATT-TTAT
1 TATTTTT-TTATTAT
8113202 TATATTTTTTATTAT
1 TAT-TTTTTTATTAT
*
8113217 CATATTTTTTATTA-
1 TAT-TTTTTTATTAT
*
8113231 TA-TTTTTAATTAT
1 TATTTTTTTATTAT
8113244 TATTTTTT
1 TATTTTTT
8113252 CATACTTTAC
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
12 9 0.14
13 2 0.03
14 25 0.38
15 30 0.45
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTTTTTATTAT
Found at i:8113393 original size:17 final size:18
Alignment explanation
Indices: 8113361--8113397 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8113351 TTGTCTTAGA
8113361 TTTTTATTATTATTTATT
1 TTTTTATTATTATTTATT
*
8113379 TTTTTATT-TTTTTTATT
1 TTTTTATTATTATTTATT
8113396 TT
1 TT
8113398 CCTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTATTATTATTTATT
Found at i:8113506 original size:14 final size:13
Alignment explanation
Indices: 8113487--8113521 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
8113477 CATCATCATT
*
8113487 TTTTTATTTATTG
1 TTTTTATTTATTA
8113500 TTATTTATTTATTA
1 TT-TTTATTTATTA
8113514 TTTTTATT
1 TTTTTATT
8113522 GAGTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTATTTATTA
Found at i:8113520 original size:17 final size:18
Alignment explanation
Indices: 8113484--8113521 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
8113474 TTTCATCATC
*
8113484 ATTTTTTTATTTATTGTT
1 ATTTATTTATTTATTGTT
*
8113502 ATTTATTTA-TTATTTTT
1 ATTTATTTATTTATTGTT
8113519 ATT
1 ATT
8113522 GAGTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
ATTTATTTATTTATTGTT
Found at i:8114186 original size:2 final size:2
Alignment explanation
Indices: 8114179--8114212 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8114169 ACATAATCAA
8114179 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8114213 TCTTATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8115133 original size:40 final size:41
Alignment explanation
Indices: 8115058--8115134 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 41
8115048 TTGTGGCTAT
* *
8115058 TAGAGACTAGGGATTTTTGATTGATTGTGGCTTTTTGCTGC
1 TAGAGACTAGGGATTTTTGATTGATTGTCGATTTTTGCTGC
** *
8115099 TAGAGACTAGGG-TTTTTTTTTTATTGTCGATTTTTG
1 TAGAGACTAGGGATTTTTGATTGATTGTCGATTTTTG
8115135 GCTTGCTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 19 0.61
41 12 0.39
ACGTcount: A:0.17, C:0.08, G:0.26, T:0.49
Consensus pattern (41 bp):
TAGAGACTAGGGATTTTTGATTGATTGTCGATTTTTGCTGC
Found at i:8115539 original size:38 final size:38
Alignment explanation
Indices: 8115485--8116129 Score: 752
Period size: 38 Copynumber: 17.1 Consensus size: 38
8115475 GTTTTTGTTT
* * *
8115485 TTTTTAAAATGAACTCCCCAAAGCTGAGGCAATGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* *
8115523 TTCTAAAAATGAACTCCTCAAAGCTGAGGTAACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * * * *
8115561 TTTTAAAAATGAATTCCTCGAGGCCGAGGTAACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * * ** * * *
8115599 TTCT-AAAATAAACTTCTCAAAAATGAGGCAATGAGAT
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
*
8115636 TTTTAAAAATGAACTCCTCGAAA-CTAAGGCAACGAAAC
1 TTTTAAAAATGAACTCCTC-AAAGCTGAGGCAACGAAAC
* *
8115674 TTTTTAAAAATGAACTCCTCAAAGCTGAGGCAATGACAC
1 -TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
8115713 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * * ** * *
8115751 TTTT-AAAATAAACTTCTAAAAAATGAGGCAATGAGAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
** *
8115788 TTTT-AAAATGTGCCTCCTCAAAGCTGAGGCGACGAAAC
1 TTTTAAAAATG-AACTCCTCAAAGCTGAGGCAACGAAAC
*
8115826 TTTTAAAAATGAACTCCTCAATA-TTGAGGCAACGAAAC
1 TTTTAAAAATGAACTCCTCAA-AGCTGAGGCAACGAAAC
* *
8115864 TTTTAAAAATGAACTCCTCAAAACTGAGGCGACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* *
8115902 TTTTAAAAATGAACTCCTAAAAGCTGAGGCGACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* *
8115940 TTTTAAAAATGAACTCCTAAAAGCTGAGGCAACAAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* *
8115978 TTTT-AAAATGAACTCCTCAAAGCTGAGGCAACGAGAT
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
8116015 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * *
8116053 TTTT-AAAATGAACTCCTTAAGGCTGAGACAACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * * *
8116090 -TTTAAAAA--AATTCCTCAAAACTAAGGTAACGAAACC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAA-C
8116126 TTTT
1 TTTT
8116130 TCTTTTTTTG
Statistics
Matches: 516, Mismatches: 79, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
35 19 0.04
36 4 0.01
37 130 0.25
38 322 0.62
39 41 0.08
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (38 bp):
TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
Found at i:8115626 original size:75 final size:76
Alignment explanation
Indices: 8115485--8116129 Score: 734
Period size: 75 Copynumber: 8.6 Consensus size: 76
8115475 GTTTTTGTTT
* * * * *
8115485 TTTTTAAAATGAACTCCCCAAAGCTGAGGCAATGAAACTTCTAAAAATGAACTCCTCAAAGCTGA
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTGA
*
8115550 GGTAACGAAAC
66 GGCAACGAAAC
* * * * * * * * *
8115561 TTTTAAAAATGAATTCCTCGAGGCCGAGGTAACGAAACTTCT-AAAATAAACTTCTCAAAAATGA
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTGA
* * *
8115625 GGCAATGAGAT
66 GGCAACGAAAC
* *
8115636 TTTTAAAAATGAACTCCTCGAAA-CTAAGGCAACGAAACTTTTTAAAAATGAACTCCTCAAAGCT
1 TTTTAAAAATGAACTCCTC-AAAGCTGAGGCAACGAAAC-TTTTAAAAATGAACTCCTCAAAACT
* *
8115700 GAGGCAATGACAC
64 GAGGCAACGAAAC
* * * *
8115713 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTT-AAAATAAACTTCTAAAAAATGA
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTGA
* *
8115777 GGCAATGAGAC
66 GGCAACGAAAC
** * * *
8115788 TTTT-AAAATGTGCCTCCTCAAAGCTGAGGCGACGAAACTTTTAAAAATGAACTCCTCAATATTG
1 TTTTAAAAATG-AACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTG
8115852 AGGCAACGAAAC
65 AGGCAACGAAAC
* *
8115864 TTTTAAAAATGAACTCCTCAAAACTGAGGCGACGAAACTTTTAAAAATGAACTCCT-AAAAGCTG
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAA-CTG
*
8115928 AGGCGACGAAAC
65 AGGCAACGAAAC
* * *
8115940 TTTTAAAAATGAACTCCTAAAAGCTGAGGCAACAAAACTTTT-AAAATGAACTCCTCAAAGCTGA
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTGA
* *
8116004 GGCAACGAGAT
66 GGCAACGAAAC
* **
8116015 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTT-AAAATGAACTCCTTAAGGCTGA
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTGA
*
8116079 GACAACGAAAC
66 GGCAACGAAAC
* * * *
8116090 -TTTAAAAA--AATTCCTCAAAACTAAGGTAACGAAACCTTTT
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAA-CTTTT
8116130 TCTTTTTTTG
Statistics
Matches: 488, Mismatches: 71, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
72 22 0.05
73 5 0.01
74 14 0.03
75 210 0.43
76 171 0.35
77 66 0.14
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (76 bp):
TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTGA
GGCAACGAAAC
Found at i:8115670 original size:113 final size:113
Alignment explanation
Indices: 8115485--8116129 Score: 723
Period size: 113 Copynumber: 5.7 Consensus size: 113
8115475 GTTTTTGTTT
* * * * *
8115485 TTTTTAAAATGAACTCCCCAAAGCTGAGGCAATGAAACTTCTAAAAATGAACTCCTCAAAGCTGA
1 TTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAA-CTGA
* * * * * *
8115550 GGTAACGAAACTTTTAAAAATGAATTCCTCGAGGCCGAGGTAACGAAAC
65 GGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * * * * * * *
8115599 TTCT-AAAATAAACTTCTCAAAAATGAGGCAATGAGATTTTTAAAAATGAACTCCTCGAAACTAA
1 TTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAAATGAACTCCTC-AAACTGA
* *
8115663 GGCAACGAAACTTTTTAAAAATGAACTCCTCAAAGCTGAGGCAATGACAC
65 GGCAACGAAAC-TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * * * *
8115713 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTT-AAAATAAACTTCTAAAAAATGA
1 TTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAAATGAACTCCT-CAAACTGA
* * ** *
8115777 GGCAATGAGACTTTT-AAAATGTGCCTCCTCAAAGCTGAGGCGACGAAAC
65 GGCAACGAAACTTTTAAAAATG-AACTCCTCAAAGCTGAGGCAACGAAAC
* *
8115826 TTTTAAAAATGAACTCCTCAATATTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTGA
1 TTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAAATGAACTCCTC-AAACTGA
* * *
8115891 GGCGACGAAACTTTTAAAAATGAACTCCTAAAAGCTGAGGCGACGAAAC
65 GGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
*
8115940 TTTTAAAAATGAACTCCT-AAAAGCTGAGGCAACAAAACTTTT-AAAATGAACTCCTCAAAGCTG
1 TTTTAAAAATGAACTCCTCAAAA-CTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAA-CTG
* *
8116003 AGGCAACGAGATTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
64 AGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* ** * * *
8116053 TTTT-AAAATGAACTCCTTAAGGCTGAGACAACGAAAC-TTTAAAAA--AATTCCTCAAAACTAA
1 TTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAAATGAACTCCTC-AAACTGA
*
8116114 GGTAACGAAACCTTTT
65 GGCAACGAAA-CTTTT
8116130 TCTTTTTTTG
Statistics
Matches: 449, Mismatches: 68, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
110 18 0.04
111 10 0.02
112 39 0.09
113 193 0.43
114 153 0.34
115 36 0.08
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (113 bp):
TTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAACTGAG
GCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
Found at i:8131220 original size:30 final size:30
Alignment explanation
Indices: 8131159--8131220 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
8131149 GCGTTCAATC
* * *
8131159 AAGTCCTTATATTTTTATTTTGAGCTTAAT
1 AAGTCCTTATACTTTTATTTTAAGCTAAAT
*
8131189 AAGTTCTTATACTTTTATTTTAAG-TCAAAT
1 AAGTCCTTATACTTTTATTTTAAGCT-AAAT
8131219 AA
1 AA
8131221 ATTTTTATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (30 bp):
AAGTCCTTATACTTTTATTTTAAGCTAAAT
Found at i:8141688 original size:30 final size:30
Alignment explanation
Indices: 8141654--8141777 Score: 146
Period size: 30 Copynumber: 4.2 Consensus size: 30
8141644 GCAATTATAT
8141654 ATTTTTATATTTTTATTTTAAATTAAATAA
1 ATTTTTATATTTTTATTTTAAATTAAATAA
* * * *
8141684 ATTTTTGTATTGTTAGTAT-AATT--ATCAA
1 ATTTTTATATTTTTATTTTAAATTAAAT-AA
*
8141712 ATTTTAATATTTTTATTTTAAATTAAATAA
1 ATTTTTATATTTTTATTTTAAATTAAATAA
* *
8141742 ATTTTTATATTTTTATTTTGAATCAAATAA
1 ATTTTTATATTTTTATTTTAAATTAAATAA
*
8141772 TTTTTT
1 ATTTTT
8141778 TGATTAATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
27 2 0.03
28 16 0.21
29 8 0.10
30 49 0.64
31 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (30 bp):
ATTTTTATATTTTTATTTTAAATTAAATAA
Found at i:8148198 original size:34 final size:34
Alignment explanation
Indices: 8148160--8148225 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
8148150 ATCATAATAG
*
8148160 AAACCACAATTAACCCTAGTGGCATGGATCATTA
1 AAACCACAATTAACCCCAGTGGCATGGATCATTA
*
8148194 AAACCACAATTAACCCCAGTGGCATGGGTCAT
1 AAACCACAATTAACCCCAGTGGCATGGATCAT
8148226 AAGTATATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (34 bp):
AAACCACAATTAACCCCAGTGGCATGGATCATTA
Found at i:8148971 original size:3 final size:3
Alignment explanation
Indices: 8148963--8149014 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
8148953 ATAAGTAATA
*
8148963 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8149011 TAT T
1 TAT T
8149015 TAAGTTAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8150437 original size:17 final size:17
Alignment explanation
Indices: 8150397--8150429 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8150387 TTAAATTTAA
8150397 TTAATAATAAAAAATTG
1 TTAATAATAAAAAATTG
8150414 TTAATAA-AAAATAATT
1 TTAATAATAAAA-AATT
8150430 TTATATAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TTAATAATAAAAAATTG
Found at i:8151112 original size:20 final size:21
Alignment explanation
Indices: 8151075--8151114 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8151065 AAGATCATGA
8151075 AAAATAAAATTGAAATAACAG
1 AAAATAAAATTGAAATAACAG
8151096 AAAA-AAAA-TGAACATAACA
1 AAAATAAAATTGAA-ATAACA
8151115 AATAGAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAATAAAATTGAAATAACAG
Found at i:8188079 original size:16 final size:16
Alignment explanation
Indices: 8188045--8188077 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8188035 GTGTCTAGGA
8188045 TTATATTTTATTTAAT
1 TTATATTTTATTTAAT
*
8188061 TTAT-TTTTTTTTAAT
1 TTATATTTTATTTAAT
8188076 TT
1 TT
8188078 TAGTTGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATATTTTATTTAAT
Found at i:8188472 original size:40 final size:40
Alignment explanation
Indices: 8188417--8188495 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
8188407 TTGGCTATTT
* *
8188417 TTCACCTTAGTGGGGTTTTTAACCTTGCCAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
* *
8188457 TTCACCTTAGTGGGGTTTTCAACCTCGTCACGATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTG
8188496 TCTTTCACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
Found at i:8188526 original size:19 final size:20
Alignment explanation
Indices: 8188492--8188529 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
8188482 CGTCACGATT
8188492 GGTGTCTTTCACAACGTCCA
1 GGTGTCTTTCACAACGTCCA
8188512 GGTGTCTTT-ACAACGTCC
1 GGTGTCTTTCACAACGTCC
8188530 CGACGTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (20 bp):
GGTGTCTTTCACAACGTCCA
Found at i:8191133 original size:40 final size:40
Alignment explanation
Indices: 8191058--8191136 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
8191048 TTGGCTATTT
*
8191058 TTCACCTTAGTGAGGTTTTCAAACTTGCCAAGATTGGTGA
1 TTCACCTTAGTGAGGTTTTCAAACTCGCCAAGATTGGTGA
* * * *
8191098 TTCACCTTAGTGGGGTTTTCAACCTCGTCACGATTGGTG
1 TTCACCTTAGTGAGGTTTTCAAACTCGCCAAGATTGGTG
8191137 TCTTTCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (40 bp):
TTCACCTTAGTGAGGTTTTCAAACTCGCCAAGATTGGTGA
Found at i:8191167 original size:19 final size:20
Alignment explanation
Indices: 8191133--8191170 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
8191123 CGTCACGATT
8191133 GGTGTCTTTCACAACGTCCA
1 GGTGTCTTTCACAACGTCCA
8191153 GGTGTCTTT-ACAACGTCC
1 GGTGTCTTTCACAACGTCC
8191171 CGGCATCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (20 bp):
GGTGTCTTTCACAACGTCCA
Found at i:8198751 original size:14 final size:14
Alignment explanation
Indices: 8198729--8198762 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8198719 AGTTATATAG
*
8198729 ATTTGTTTACCTGA
1 ATTTTTTTACCTGA
*
8198743 ATTTTTTTATCTGA
1 ATTTTTTTACCTGA
8198757 ATTTTT
1 ATTTTT
8198763 AAGTAGTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.62
Consensus pattern (14 bp):
ATTTTTTTACCTGA
Found at i:8200691 original size:30 final size:30
Alignment explanation
Indices: 8200609--8200711 Score: 104
Period size: 30 Copynumber: 3.4 Consensus size: 30
8200599 CAGCCCCTCC
* *
8200609 CCCTAGGGAGCACTGATCTGGTGCTCCC-T
1 CCCTTGGGAGCACTGATCTAGTGCTCCCTT
* * *
8200638 CCCTTGGGAACCCCAGATC-AGTGCTCCCTT
1 CCCTTGGG-AGCACTGATCTAGTGCTCCCTT
*
8200668 CCCTTTGGAGCACTGATCTAGTGCTCCTCTT
1 CCCTTGGGAGCACTGATCTAGTGCTCC-CTT
8200699 -CCTTGGGGAGCAC
1 CCCTT-GGGAGCAC
8200712 CTACTGTGGG
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
29 22 0.37
30 27 0.46
31 10 0.17
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (30 bp):
CCCTTGGGAGCACTGATCTAGTGCTCCCTT
Found at i:8203768 original size:28 final size:24
Alignment explanation
Indices: 8203705--8203767 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
8203695 TTAAGTCAAT
8203705 GAAACTTGATAGATATATGGATTA
1 GAAACTTGATAGATATATGGATTA
8203729 GAAACTTGATAGATATATGGATTA
1 GAAACTTGATAGATATATGGATTA
8203753 GAAACTTGATAGATA
1 GAAACTTGATAGATA
8203768 GTCAGTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.32
Consensus pattern (24 bp):
GAAACTTGATAGATATATGGATTA
Found at i:8205463 original size:148 final size:148
Alignment explanation
Indices: 8205195--8205492 Score: 569
Period size: 148 Copynumber: 2.0 Consensus size: 148
8205185 GTAAGACAAT
8205195 TAAATCAAGTTTACCGAATCAAGTAATTTACTTTGTATTTAGATTTTAGGTAATTTGTTTTTCTT
1 TAAATCAAGTTTACCGAATCAAGTAATTTACTTTGTATTTAGATTTTAGGTAATTTGTTTTTCTT
*
8205260 TCATTAGAGCAATAATACTTACTTATTCTCTCAAAAAAAAATTTATAATTAGTGGATGGGAGATT
66 TCATTAGAGCAATAATACTTACTTATTCTCTCAAAAAAAAATTTATAATTAGTGGATGAGAGATT
8205325 CGAACCCTACTCTTTAGG
131 CGAACCCTACTCTTTAGG
*
8205343 TAAATCAAGTTTACCGAATCAGGTAATTTACTTTGTATTTAGATTTTAGGTAATTTGTTTTTCTT
1 TAAATCAAGTTTACCGAATCAAGTAATTTACTTTGTATTTAGATTTTAGGTAATTTGTTTTTCTT
*
8205408 TCATTAGAGCAATAATACTTACTTATTCTCTCAAAAAAAATTTTATAATTAGTGGATGAGAGATT
66 TCATTAGAGCAATAATACTTACTTATTCTCTCAAAAAAAAATTTATAATTAGTGGATGAGAGATT
8205473 CGAACCCTACTCTTTAGG
131 CGAACCCTACTCTTTAGG
8205491 TA
1 TA
8205493 GAGAATCAAG
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 147 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (148 bp):
TAAATCAAGTTTACCGAATCAAGTAATTTACTTTGTATTTAGATTTTAGGTAATTTGTTTTTCTT
TCATTAGAGCAATAATACTTACTTATTCTCTCAAAAAAAAATTTATAATTAGTGGATGAGAGATT
CGAACCCTACTCTTTAGG
Found at i:8207110 original size:20 final size:22
Alignment explanation
Indices: 8207081--8207124 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
8207071 ATCAACAACT
8207081 TTAA-TGTTTT-ATGTTTTATA
1 TTAATTGTTTTAATGTTTTATA
* *
8207101 TTAATTTTTTTAATTTTTTATA
1 TTAATTGTTTTAATGTTTTATA
8207123 TT
1 TT
8207125 CAAAAGGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TTAATTGTTTTAATGTTTTATA
Found at i:8210980 original size:45 final size:45
Alignment explanation
Indices: 8210914--8211002 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
8210904 AAAAATGTCG
*
8210914 TTTTAAGTAAAAGGTCTTGAACTAATTCTGGCTATGGTGCTAGTA
1 TTTTAAGTAAAAGGTCATGAACTAATTCTGGCTATGGTGCTAGTA
*
8210959 TTTTAAGTAAAAGGTCATGAACTCATTCTGGCTATGGTGCTAGT
1 TTTTAAGTAAAAGGTCATGAACTAATTCTGGCTATGGTGCTAGT
8211003 GTATCTATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.37
Consensus pattern (45 bp):
TTTTAAGTAAAAGGTCATGAACTAATTCTGGCTATGGTGCTAGTA
Found at i:8213929 original size:18 final size:17
Alignment explanation
Indices: 8213906--8213944 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8213896 GATATGCTCA
8213906 CACACGC-ACACGCACAAG
1 CACACGCAACA-GC-CAAG
8213924 CACACGCAACAGCCAAG
1 CACACGCAACAGCCAAG
8213941 CACA
1 CACA
8213945 TGCTAATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 9 0.45
19 3 0.15
ACGTcount: A:0.41, C:0.44, G:0.15, T:0.00
Consensus pattern (17 bp):
CACACGCAACAGCCAAG
Found at i:8227678 original size:26 final size:25
Alignment explanation
Indices: 8227641--8227690 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
8227631 GCATGAATGA
*
8227641 ATATGAATATGACAAAACATATAAGG
1 ATATGAAAATGACAAAACAT-TAAGG
*
8227667 ATATGAAAATGACAAATCATTAAG
1 ATATGAAAATGACAAAACATTAAG
8227691 AAAATGACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (25 bp):
ATATGAAAATGACAAAACATTAAGG
Found at i:8230154 original size:92 final size:92
Alignment explanation
Indices: 8230039--8230224 Score: 309
Period size: 92 Copynumber: 2.0 Consensus size: 92
8230029 ACCCCTAAAG
* *
8230039 AAAACTTATATTATACTTGCTTAATTACTTAATTATGTTATAAAAACATTTATACCTATTAAGTT
1 AAAACTTATATTATACTTACTTAATTACTTAATTATGTTATAAAAACATTTATACATATTAAGTT
*
8230104 ATAGTTTTTATAAAAATAAATAACTAA
66 ATAGGTTTTATAAAAATAAATAACTAA
* * *
8230131 AAAATTTATATTATACTTACTTAATTATTTAATTATGTTATAAAAATATTTATACATATTAAGTT
1 AAAACTTATATTATACTTACTTAATTACTTAATTATGTTATAAAAACATTTATACATATTAAGTT
*
8230196 CTAGGTTTTATAAAAATAAATAACTAA
66 ATAGGTTTTATAAAAATAAATAACTAA
8230223 AA
1 AA
8230225 TATTGTTTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (92 bp):
AAAACTTATATTATACTTACTTAATTACTTAATTATGTTATAAAAACATTTATACATATTAAGTT
ATAGGTTTTATAAAAATAAATAACTAA
Found at i:8230481 original size:127 final size:123
Alignment explanation
Indices: 8230345--8230575 Score: 286
Period size: 126 Copynumber: 1.8 Consensus size: 123
8230335 ATCACGCCTG
* * * * *
8230345 AGTCCTTACTTCTCTTCTCTTTTTTATTAAATGAA-TCCCAAAGTTATACCAACAATT-ATAATA
1 AGTCCTTACTTCTATTCTC-TCTTTATTAAATAAACT-CCAAAGTCATAACAAC-ATTGAT-A-A
** *
8230408 AAAATAAAATGATATTTTACTTATTTATTTTTATAAAAACTATAAGACTTTATCGCTACACCTA
61 AAAATAAAACAACATTTTACTTATTTA-TTTTATAAAAACTATAAGACTTTATCGCTACACCTA
** *
8230472 AGTCCTTACTTCTATTCTCTCTTTATTAAATAAACTCCAAAGTCATAACTGCATTGATAAAACAT
1 AGTCCTTACTTCTATTCTCTCTTTATTAAATAAACTCCAAAGTCATAACAACATTGATAAAAAAT
*
8230537 AAAACAACATTTTACTTATTTATTTTATAAACACTATAA
66 AAAACAACATTTTACTTATTTATTTTATAAAAACTATAA
8230576 CTTAATAGGT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
123 16 0.18
124 24 0.27
125 4 0.04
126 27 0.30
127 19 0.21
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (123 bp):
AGTCCTTACTTCTATTCTCTCTTTATTAAATAAACTCCAAAGTCATAACAACATTGATAAAAAAT
AAAACAACATTTTACTTATTTATTTTATAAAAACTATAAGACTTTATCGCTACACCTA
Found at i:8234882 original size:18 final size:17
Alignment explanation
Indices: 8234861--8234918 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
8234851 GTATATACAT
8234861 TTAAACATGATAACACGA
1 TTAAACA-GATAACACGA
* * * *
8234879 TTAAACACATTTATACGT
1 TTAAACAGA-TAACACGA
8234897 TTAAACACGATAACACGA
1 TTAAACA-GATAACACGA
8234915 TTAA
1 TTAA
8234919 TTAAACTTGT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.28
Consensus pattern (17 bp):
TTAAACAGATAACACGA
Found at i:8235448 original size:39 final size:41
Alignment explanation
Indices: 8235394--8235473 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
8235384 GTACACGTAC
* *
8235394 ACGTTTAATACACGTG-CAATAT-GACACGACACGTTTAAG
1 ACGTTTAATAAACGTGTCAATATAGACACGACACGATTAAG
* *
8235433 ACGTTTATTAAACGTGTTAATATACGACACGACACGATTAA
1 ACGTTTAATAAACGTGTCAATATA-GACACGACACGATTAA
8235474 TAACACGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 14 0.41
40 5 0.15
42 15 0.44
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (41 bp):
ACGTTTAATAAACGTGTCAATATAGACACGACACGATTAAG
Found at i:8235511 original size:18 final size:18
Alignment explanation
Indices: 8235474--8235512 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
8235464 ACACGATTAA
* *
8235474 TAACACGTTTAATACGAT
1 TAACACGTTTAACACAAT
8235492 TAACACGTTTAACACAAT
1 TAACACGTTTAACACAAT
8235510 TAA
1 TAA
8235513 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (18 bp):
TAACACGTTTAACACAAT
Found at i:8237988 original size:28 final size:28
Alignment explanation
Indices: 8237946--8238015 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
8237936 TAAATGAATG
* *
8237946 TATTAAATTTATATTTTTTTAA-TTTAA
1 TATTAAATTTATATTTTATAAATTTTAA
*
8237973 TATTAAAATTTTTATTTTATAAATTTTAA
1 TATT-AAATTTATATTTTATAAATTTTAA
8238002 TA-T--ATTTATATTTT
1 TATTAAATTTATATTTT
8238016 TTTAATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 10 0.27
27 4 0.11
28 16 0.43
29 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TATTAAATTTATATTTTATAAATTTTAA
Found at i:8238017 original size:18 final size:20
Alignment explanation
Indices: 8237995--8238040 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
8237985 TATTTTATAA
8237995 ATTTTAATATATT-TATATTT
1 ATTTTAATATATTAT-TATTT
8238015 -TTTTAAT-TATTATTA-TT
1 ATTTTAATATATTATTATTT
8238032 ATTTTAATA
1 ATTTTAATA
8238041 ATAACACCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 2 0.09
18 13 0.57
19 8 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTAATATATTATTATTT
Found at i:8238037 original size:28 final size:27
Alignment explanation
Indices: 8237953--8238037 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 27
8237943 ATGTATTAAA
* *
8237953 TTTATATTTTTTTAATTTAATATTAAAAT
1 TTTATATTTTTTTAA-TTATTATT-ATAT
* * *
8237982 TTT-TATTTTATAAATT-TTAATATA-
1 TTTATATTTTTTTAATTATTATTATAT
8238006 TTTATATTTTTTTAATTATTATTATTAT
1 TTTATATTTTTTTAATTATTATTA-TAT
8238034 TTTA
1 TTTA
8238038 ATAATAACAC
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
24 3 0.07
25 13 0.30
26 8 0.18
27 4 0.09
28 13 0.30
29 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTATATTTTTTTAATTATTATTATAT
Found at i:8258448 original size:26 final size:24
Alignment explanation
Indices: 8258411--8258460 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 24
8258401 TTCCTATGTT
8258411 TTTTCTATTTATTTGATTTCTTTGGGC
1 TTTTCTATTTA-TT-ATTT-TTTGGGC
8258438 TTTT-TATTTATTATTTTTTGGGC
1 TTTTCTATTTATTATTTTTTGGGC
8258461 AATTTTCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.30
24 4 0.17
25 2 0.09
26 6 0.26
27 4 0.17
ACGTcount: A:0.12, C:0.08, G:0.14, T:0.66
Consensus pattern (24 bp):
TTTTCTATTTATTATTTTTTGGGC
Found at i:8262663 original size:15 final size:16
Alignment explanation
Indices: 8262643--8262674 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8262633 AACAAGCACC
8262643 GTGGCT-TTTGTTTCT
1 GTGGCTCTTTGTTTCT
8262658 GTGGCTCTTTGTTTCT
1 GTGGCTCTTTGTTTCT
8262674 G
1 G
8262675 CTGAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.00, C:0.16, G:0.28, T:0.56
Consensus pattern (16 bp):
GTGGCTCTTTGTTTCT
Found at i:8265476 original size:2 final size:2
Alignment explanation
Indices: 8265469--8265526 Score: 73
Period size: 2 Copynumber: 29.0 Consensus size: 2
8265459 CAATGCGTAA
* *
8265469 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
8265511 AT -T AT GNT AT AT AT AT
1 AT AT AT -AT AT AT AT AT
8265527 CAATGTGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
1 1 0.02
2 46 0.96
3 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8265845 original size:386 final size:385
Alignment explanation
Indices: 8265132--8265894 Score: 1490
Period size: 386 Copynumber: 2.0 Consensus size: 385
8265122 CATATATATA
8265132 TATATATATCAATGTGAAATTAATTAAATTTACACCTTTCATATTTTTTATACAATTTATATTTT
1 TATATATATCAATGTGAAATTAATTAAATTTACACCTTTCATATTTTTTATACAATTTATATTTT
8265197 GTTAATCTAATCGTTGTATTCCATATATACTCTATTTACGTAGATCATGCATGAAAAATTTTAAC
66 GTTAATCTAATCGTTGTATTCCATATATACTCTATTTACGTAGATCATGCATGAAAAATTTTAAC
8265262 TCAATTGAAACTATCTAATTATTTGTATGATAACAATGAAATTTTAATTGTTAAATATATATTAA
131 TCAATTGAAACTATCTAATTATTTGTATGATAACAATGAAATTTTAATTGTTAAATATATATTAA
8265327 AGAACAATATTCTCCACCAATGCTCTCTGAATGTCATTCTGACTAGAAACTTTATATGTATGATT
196 AGAACAATATTCTCCACCAATGCTCTCTGAATGTCATTCTGACTAGAAACTTTATATGTATGATT
8265392 AGGTGCAAACAATGTTAGCTTGCTAAAAGTTAATTGTATATGAAATTAGAAAGGTGTAAAACTTA
261 AGGTGCAAACAATGTTAGCTTGCTAAAAGTTAATTGTATATGAAATTAGAAAGGTGTAAAACTTA
* *
8265457 ATCAATGCGTAAATATATATACATATATATATATATATATATATATATATATTTATTATG
326 ATCAATGCGTAAATATATATACATATATATAAATAAATATATATATATATATTTATTATG
8265517 NTATATATATCAATGTGAAATTAATTAAATTTACACCTTTCATATTTTTTATACAATTTATATTT
1 -TATATATATCAATGTGAAATTAATTAAATTTACACCTTTCATATTTTTTATACAATTTATATTT
8265582 TGTTAATCTAATCGTTGTATTCCATATATACTCTATTTACGTAGATCATGCATGAAAAATTTTAA
65 TGTTAATCTAATCGTTGTATTCCATATATACTCTATTTACGTAGATCATGCATGAAAAATTTTAA
8265647 CTCAATTGAAACTATCTAATTATTTGTATGATAACAATGAAATTTTAATTGTTAAATATATATTA
130 CTCAATTGAAACTATCTAATTATTTGTATGATAACAATGAAATTTTAATTGTTAAATATATATTA
8265712 AAGAACAATATTCTCCACCAATGCTCTCTGAATGTCATTCTGACTAGAAACTTTATATGTATGAT
195 AAGAACAATATTCTCCACCAATGCTCTCTGAATGTCATTCTGACTAGAAACTTTATATGTATGAT
8265777 TAGGTGCAAACAATGTTAGCTTGCTAAAAGTTAATTGTATATGAAATTAGAAAGGTGTAAAACTT
260 TAGGTGCAAACAATGTTAGCTTGCTAAAAGTTAATTGTATATGAAATTAGAAAGGTGTAAAACTT
*
8265842 AATCAATGCGTAAATATATATACATATATATAAATAAATATTTATATATATAT
325 AATCAATGCGTAAATATATATACATATATATAAATAAATATATATATATATAT
8265895 ATAATTTTTA
Statistics
Matches: 374, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
386 374 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (385 bp):
TATATATATCAATGTGAAATTAATTAAATTTACACCTTTCATATTTTTTATACAATTTATATTTT
GTTAATCTAATCGTTGTATTCCATATATACTCTATTTACGTAGATCATGCATGAAAAATTTTAAC
TCAATTGAAACTATCTAATTATTTGTATGATAACAATGAAATTTTAATTGTTAAATATATATTAA
AGAACAATATTCTCCACCAATGCTCTCTGAATGTCATTCTGACTAGAAACTTTATATGTATGATT
AGGTGCAAACAATGTTAGCTTGCTAAAAGTTAATTGTATATGAAATTAGAAAGGTGTAAAACTTA
ATCAATGCGTAAATATATATACATATATATAAATAAATATATATATATATATTTATTATG
Found at i:8265862 original size:2 final size:2
Alignment explanation
Indices: 8265855--8265897 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
8265845 CAATGCGTAA
* * * *
8265855 AT AT AT AT AC AT AT AT AT AA AT AA AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8265897 A
1 A
8265898 ATTTTTATGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8265877 original size:20 final size:20
Alignment explanation
Indices: 8265852--8265898 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
8265842 AATCAATGCG
*
8265852 TAAATATATATACATATATA
1 TAAATAAATATACATATATA
**
8265872 TAAATAAATATTTATATATA
1 TAAATAAATATACATATATA
*
8265892 TATATAA
1 TAAATAA
8265899 TTTTTATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAAATATACATATATA
Found at i:8270760 original size:20 final size:21
Alignment explanation
Indices: 8270727--8270777 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
8270717 TAAATGAATC
** *
8270727 AAAAAATTATTAAATTA-TTT
1 AAAAAATTCCTAAACTATTTT
8270747 AAAAAATTCCTAAACTATTTT
1 AAAAAATTCCTAAACTATTTT
8270768 AAAGAAATTC
1 AAA-AAATTC
8270778 AAATAAGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 14 0.54
21 6 0.23
22 6 0.23
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAAAATTCCTAAACTATTTT
Found at i:8279865 original size:20 final size:20
Alignment explanation
Indices: 8279837--8279876 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8279827 GGTATCTCGT
8279837 AAGTATTTTG-TCTATATAAA
1 AAGTATTTTGCTC-ATATAAA
*
8279857 AAGTCTTTTGCTCATATAAA
1 AAGTATTTTGCTCATATAAA
8279877 GAATAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (20 bp):
AAGTATTTTGCTCATATAAA
Found at i:8280063 original size:35 final size:29
Alignment explanation
Indices: 8279979--8280039 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
8279969 GAATTATAAT
8279979 TTTTA-TTTAAAAAAATAAATTATTTGAG
1 TTTTATTTTAAAAAAATAAATTATTTGAG
8280007 TTTTATTTTAAAAAAATAAATTATTTGAG
1 TTTTATTTTAAAAAAATAAATTATTTGAG
8280036 TTTT
1 TTTT
8280040 CTCTCTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (29 bp):
TTTTATTTTAAAAAAATAAATTATTTGAG
Found at i:8294904 original size:111 final size:112
Alignment explanation
Indices: 8294684--8294907 Score: 398
Period size: 111 Copynumber: 2.0 Consensus size: 112
8294674 GCAAAAATTG
*
8294684 TTGGTGTATTTTCAAAAATCAAAGGTTATGTCACATAATCAAAAGCTATCTTAGCTCAAAGGTTT
1 TTGGTGTATTTTCAAAAATCAAAGGTTATGTCACATAATAAAAAGCTATCTTAGCTCAAAGGTTT
8294749 GTCACATAAAGTGACATAGTGTGACTATTGGATTGTAGACAGGTTAT
66 GTCACATAAAGTGACATAGTGTGACTATTGGATTGTAGACAGGTTAT
* *
8294796 NTTGGTGTATTTTC-AAAATCAAATGTTATGTCACATAATAAAAAGCTATTTTAGCTCAAAGG-T
1 -TTGGTGTATTTTCAAAAATCAAAGGTTATGTCACATAATAAAAAGCTATCTTAGCTCAAAGGTT
8294859 TGTCACATAAAGTGACATAGTGTGACTATTGGATTGTAGACAGGTTAT
65 TGTCACATAAAGTGACATAGTGTGACTATTGGATTGTAGACAGGTTAT
8294907 T
1 T
8294908 GTTTCATTAG
Statistics
Matches: 108, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
110 1 0.01
111 49 0.45
112 45 0.42
113 13 0.12
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (112 bp):
TTGGTGTATTTTCAAAAATCAAAGGTTATGTCACATAATAAAAAGCTATCTTAGCTCAAAGGTTT
GTCACATAAAGTGACATAGTGTGACTATTGGATTGTAGACAGGTTAT
Found at i:8295666 original size:5 final size:5
Alignment explanation
Indices: 8295656--8295684 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
8295646 CTCTCTTATG
8295656 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
8295685 ATCAAGAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:8296249 original size:22 final size:22
Alignment explanation
Indices: 8296222--8296266 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
8296212 AAATAAAATC
*
8296222 TAAAAAAAAAACACATCAAATAA
1 TAAAATAAAAAC-CATCAAATAA
* *
8296245 TAAAATCAAAACCATTAAATAA
1 TAAAATAAAAACCATCAAATAA
8296267 ATATTTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (22 bp):
TAAAATAAAAACCATCAAATAA
Found at i:8307768 original size:20 final size:20
Alignment explanation
Indices: 8307733--8307774 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8307723 TATAAATGGA
* *
8307733 TTAAAAAATTATTAAATTAT
1 TTAAAAAATTACTAAACTAT
*
8307753 TTAAAAAATTCCTAAACTAT
1 TTAAAAAATTACTAAACTAT
8307773 TT
1 TT
8307775 TACAACAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAAAATTACTAAACTAT
Found at i:8319324 original size:2 final size:2
Alignment explanation
Indices: 8319319--8319359 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8319309 TTTTAAGTAT
8319319 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8319360 CAGTGTCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8326174 original size:355 final size:353
Alignment explanation
Indices: 8325731--8326439 Score: 1206
Period size: 355 Copynumber: 2.0 Consensus size: 353
8325721 AAAATAAAAG
*
8325731 TCAGGCCAAACATAAAATTTTAAAAAGCTCTTAAAAAAAAGTAGCTTTTATTAAAGAACAAATTT
1 TCAGGCCAAACATAAAATTTTAAAAAGCTCTTAAAAAAAAGTAGCTTTTATTAAAGAACAAAATT
* * *
8325796 TTGAAAAAAGAGCTTCAAGGAAAAGCTCATATTAAGAGTTTTTTCTTCTCTTTTTTTAAAAATGC
66 TTGAAAAAAGAGCTTCAAGGAAAAGCTCATATGAAGAGCTTTTTCTTCTCTTCTTTTAAAAATGC
8325861 AAGAGAATTTTTATTTTTGTTCCAAAAATATCATCATCTGTTAAAATAATTACAATATTACCCTC
131 AAGAGAATTTTTATTTTTGTTCCAAAAATATCATCATCTGTTAAAATAATTACAATATTACCCTC
8325926 TCAAAAAAAGAAATACCCTTTATGATAATTTTAACAAAAATTTATAACTTA-TAAAAAGAAATTT
196 TCAAAAAAAGAAATACCCTTTATGATAATTTTAACAAAAA-TTATAACTTATTAAAAA-AAATTT
* *
8325990 ACTAAATAATTTTAGCTTAATTTTAAAAGCTATTATTATTCATAAGAGCTTCATAAGAGCTTTTA
259 ACCAAACAATTTTAGCTTAATTTTAAAAGCTATTATTATTCATAAGAGCTTCATAAGAGCTTTTA
8326055 AGCTAAAAAAAAGCCAGGCCAAACAAACTC
324 AGCTAAAAAAAAGCCAGGCCAAACAAACTC
* *
8326085 NTCAGGCCAAACATAAAATTTTAAAAAGCTCTTAAAAAAAAGTAGCTTTTTTTAAAGAATAAAAT
1 -TCAGGCCAAACATAAAATTTTAAAAAGCTCTTAAAAAAAAGTAGCTTTTATTAAAGAACAAAAT
* *
8326150 TTTGAAAAAAAGAGCTTC-AGGAAAAGCTCCTATGAAGAGCTTTTTCTTTTCTTCTTTTAAAAAT
65 TTTG-AAAAAAGAGCTTCAAGGAAAAGCTCATATGAAGAGCTTTTTCTTCTCTTCTTTTAAAAAT
8326214 GCAAGAGAATTTTTATTTTTGTTCCAAAAATATCATCATCTGTTAAAATAATTACAATATTACCC
129 GCAAGAGAATTTTTATTTTTGTTCCAAAAATATCATCATCTGTTAAAATAATTACAATATTACCC
* * *
8326279 TCTCAAAAAAAGAAATACTCTTTATTATAATTTTAACCAAAATTATAACTTATTAAAAAAAATTT
194 TCTCAAAAAAAGAAATACCCTTTATGATAATTTTAACAAAAATTATAACTTATTAAAAAAAATTT
* * *
8326344 ACCAAACAATTTTAGCTTAATTTTAAAAGCTATTATTTTTCATAAGAGCTTTATAATAGCTTTTA
259 ACCAAACAATTTTAGCTTAATTTTAAAAGCTATTATTATTCATAAGAGCTTCATAAGAGCTTTTA
* *
8326409 AGCTAGAAAAAAGCCAGGCCAAACAGACTC
324 AGCTAAAAAAAAGCCAGGCCAAACAAACTC
8326439 T
1 T
8326440 TAAACAATAC
Statistics
Matches: 334, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
353 1 0.00
354 104 0.31
355 216 0.65
356 13 0.04
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (353 bp):
TCAGGCCAAACATAAAATTTTAAAAAGCTCTTAAAAAAAAGTAGCTTTTATTAAAGAACAAAATT
TTGAAAAAAGAGCTTCAAGGAAAAGCTCATATGAAGAGCTTTTTCTTCTCTTCTTTTAAAAATGC
AAGAGAATTTTTATTTTTGTTCCAAAAATATCATCATCTGTTAAAATAATTACAATATTACCCTC
TCAAAAAAAGAAATACCCTTTATGATAATTTTAACAAAAATTATAACTTATTAAAAAAAATTTAC
CAAACAATTTTAGCTTAATTTTAAAAGCTATTATTATTCATAAGAGCTTCATAAGAGCTTTTAAG
CTAAAAAAAAGCCAGGCCAAACAAACTC
Found at i:8327859 original size:19 final size:19
Alignment explanation
Indices: 8327835--8327871 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8327825 CATTTGACTC
8327835 ATTGGAGTATGATTTGAGT
1 ATTGGAGTATGATTTGAGT
8327854 ATTGGAGTATGATTTGAG
1 ATTGGAGTATGATTTGAG
8327872 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (19 bp):
ATTGGAGTATGATTTGAGT
Found at i:8329115 original size:13 final size:13
Alignment explanation
Indices: 8329097--8329121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8329087 GGAGAAATTG
8329097 TGATTTTATAAAA
1 TGATTTTATAAAA
8329110 TGATTTTATAAA
1 TGATTTTATAAA
8329122 TTTTTTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:8330275 original size:15 final size:15
Alignment explanation
Indices: 8330255--8330287 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8330245 AAAACAAGCA
8330255 CTGTGGCT-TCTGTTT
1 CTGTGGCTCT-TGTTT
8330270 CTGTGGCTCTTGTTT
1 CTGTGGCTCTTGTTT
8330285 CTG
1 CTG
8330288 CGGAAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.00, C:0.21, G:0.27, T:0.52
Consensus pattern (15 bp):
CTGTGGCTCTTGTTT
Found at i:8336050 original size:19 final size:19
Alignment explanation
Indices: 8336026--8336063 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8336016 CTGCCAAACC
*
8336026 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
8336045 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
8336064 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:8336685 original size:13 final size:13
Alignment explanation
Indices: 8336667--8336691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8336657 GGAGAAATTG
8336667 TGATTTTATAAAA
1 TGATTTTATAAAA
8336680 TGATTTTATAAA
1 TGATTTTATAAA
8336692 TTTTTTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:8343579 original size:60 final size:61
Alignment explanation
Indices: 8343511--8343625 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 61
8343501 GTATTGTGAG
* *
8343511 CATTTTAGAGT-AGTTTTTGATACACGAAG-AAAACTTGT-GAGCGTTTTGAGCATTTTTAAA
1 CATTTTAGAGTGA-TTTTTGATACACGAAGAAAAACTT-TCGAACATTTTGAGCATTTTTAAA
* *
8343571 CATTTTAGAGTGATTTTTGATATATGAAGAAAAACTTTCGAACATTTTGAGCATT
1 CATTTTAGAGTGATTTTTGATACACGAAGAAAAACTTTCGAACATTTTGAGCATT
8343626 CATATTTGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
60 26 0.54
61 22 0.46
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (61 bp):
CATTTTAGAGTGATTTTTGATACACGAAGAAAAACTTTCGAACATTTTGAGCATTTTTAAA
Found at i:8343775 original size:21 final size:21
Alignment explanation
Indices: 8343749--8343808 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
8343739 TTAGGCATTG
8343749 CGTGACTGACTTTGGATATTA
1 CGTGACTGACTTTGGATATTA
**
8343770 CGTGACTGACTTTGGGCATTA
1 CGTGACTGACTTTGGATATTA
* *
8343791 CGTGACTGATTTTTGATA
1 CGTGACTGACTTTGGATA
8343809 AGGTATTGCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (21 bp):
CGTGACTGACTTTGGATATTA
Found at i:8343829 original size:26 final size:26
Alignment explanation
Indices: 8343784--8344134 Score: 237
Period size: 26 Copynumber: 14.7 Consensus size: 26
8343774 ACTGACTTTG
*
8343784 GGCATTACGTGACT-GATTTTTGATAA
1 GGCATTGCGTGACTAG-TTTTTGATAA
*
8343810 GGTATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
*
8343836 GGCATTGC-TGACTAG---TTAAT-A
1 GGCATTGCGTGACTAGTTTTTGATAA
* **
8343857 GGCATTACGTGACT-GACTTTG---A
1 GGCATTGCGTGACTAGTTTTTGATAA
*
8343879 -GTATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
* *
8343904 GGCATTGCGTGACTAGTTTCTAATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
8343930 GGCATTGCGTGACTAG---TTGAT-A
1 GGCATTGCGTGACTAGTTTTTGATAA
**
8343952 GGCATTGCGTGACTA-ACTTTG----
1 GGCATTGCGTGACTAGTTTTTGATAA
* *
8343973 GGCATTGTGTGCCTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
* * *
8343999 GGCATTACATGACTAGTTTCTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
** *
8344025 GGCATTGCAAGACTA--ATTT-AT-A
1 GGCATTGCGTGACTAGTTTTTGATAA
* *
8344047 GGCATTGCGTGACT--TGTTAG-TAA
1 GGCATTGCGTGACTAGTTTTTGATAA
* *
8344070 GGCATTGCGTGACT--TGTTAG-TAA
1 GGCATTGCGTGACTAGTTTTTGATAA
* *
8344093 GGCATTGCGTGACT--TATTAG-TAA
1 GGCATTGCGTGACTAGTTTTTGATAA
8344116 GGCATTGCGTGACTAGTTT
1 GGCATTGCGTGACTAGTTT
8344135 GTAGGGCATT
Statistics
Matches: 268, Mismatches: 34, Indels: 47
0.77 0.10 0.13
Matches are distributed among these distances:
21 33 0.12
22 51 0.19
23 65 0.24
24 7 0.03
25 10 0.04
26 101 0.38
27 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (26 bp):
GGCATTGCGTGACTAGTTTTTGATAA
Found at i:8343847 original size:68 final size:64
Alignment explanation
Indices: 8343775--8343917 Score: 171
Period size: 68 Copynumber: 2.1 Consensus size: 64
8343765 TATTACGTGA
* *
8343775 CTGACTT-TGGGCATTACGTGACTGATTTTTGATAAGGTATTGCGTGACTAGTTTTTGATAAGGC
1 CTGACTTATAGGCATTACGTGACTGA-CTTTG---A-GTATTGCGTGACTAGTTTTTGATAAGGC
8343839 ATTG
61 ATTG
8343843 CTGACTAGTTAATAGGCATTACGTGACTGACTTTGAGTATTGCGTGACTAGTTTTTGATAAGGCA
1 CTGAC---TT-ATAGGCATTACGTGACTGACTTTGAGTATTGCGTGACTAGTTTTTGATAAGGCA
8343908 TTG
62 TTG
8343911 CGTGACT
1 C-TGACT
8343918 AGTTTCTAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 14
0.81 0.02 0.17
Matches are distributed among these distances:
66 1 0.01
68 38 0.57
69 5 0.07
71 2 0.03
72 4 0.06
73 17 0.25
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (64 bp):
CTGACTTATAGGCATTACGTGACTGACTTTGAGTATTGCGTGACTAGTTTTTGATAAGGCATTG
Found at i:8343889 original size:94 final size:95
Alignment explanation
Indices: 8343766--8344060 Score: 405
Period size: 95 Copynumber: 3.1 Consensus size: 95
8343756 GACTTTGGAT
* * *
8343766 ATTACGTGACTGACTTTGGGCATTACGTGACT-GATTTTTGATAAGGTATTGCGTGACTAGTTTT
1 ATTACGTGACTGACTTTGGGCATTGCGTGACTAG-TTTTTGATAAGGCATTGCGTGACTAGTTTC
8343830 TGATAAGGCATTGC-TGACTAGTTAATAGGC
65 TGATAAGGCATTGCATGACTAGTTAATAGGC
* *
8343860 ATTACGTGACTGACTTTGAGTATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
1 ATTACGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
* * *
8343925 AATAAGGCATTGCGTGACTAGTTGATAGGC
66 GATAAGGCATTGCATGACTAGTTAATAGGC
* * * * * *
8343955 ATTGCGTGACTAACTTTGGGCATTGTGTGCCTAGTTTTTGATAAGGCATTACATGACTAGTTTCT
1 ATTACGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
* * *
8344020 GATAAGGCATTGCAAGACTAATTTATAGGC
66 GATAAGGCATTGCATGACTAGTTAATAGGC
*
8344050 ATTGCGTGACT
1 ATTACGTGACT
8344061 TGTTAGTAAG
Statistics
Matches: 179, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
94 70 0.39
95 109 0.61
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (95 bp):
ATTACGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCT
GATAAGGCATTGCATGACTAGTTAATAGGC
Found at i:8343978 original size:21 final size:21
Alignment explanation
Indices: 8343835--8344130 Score: 80
Period size: 23 Copynumber: 12.8 Consensus size: 21
8343825 GTTTTTGATA
*
8343835 AGGCATTGC-TGACTAGTTAAT
1 AGGCATTGCGTGACTACTT-AT
*
8343856 AGGCATTACGTGACTGACTT-T
1 AGGCATTGCGTGACT-ACTTAT
* *
8343877 -GAGTATTGCGTGACTAGTTTTTGAT
1 AG-GCATTGCGTGACTA---CTT-AT
*
8343902 AAGGCATTGCGTGACTAGTTTCTAAT
1 -AGGCATTGCGTGACTA----CTTAT
*
8343928 AAGGCATTGCGTGACTAGTTGAT
1 -AGGCATTGCGTGACTACTT-AT
8343951 AGGCATTGCGTGACTAACTT-T
1 AGGCATTGCGTGACT-ACTTAT
* * * *
8343972 GGGCATTGTGTGCCTAGTTTTTGAT
1 AGGCATTGCGTGACTA---CTT-AT
* * *
8343997 AAGGCATTACATGACTAGTTTCTGAT
1 -AGGCATTGCGTGACTA----CTTAT
** *
8344023 AAGGCATTGCAAGACTAATTTAT
1 -AGGCATTGCGTGACT-ACTTAT
**
8344046 AGGCATTGCGTGACTTGTTAGT
1 AGGCATTGCGTGACTACTTA-T
**
8344068 AAGGCATTGCGTGACTTGTTAGT
1 -AGGCATTGCGTGACTACTTA-T
8344091 AAGGCATTGCGTGACTTA-TTAGT
1 -AGGCATTGCGTGAC-TACTTA-T
8344114 AAGGCATTGCGTGACTA
1 -AGGCATTGCGTGACTA
8344131 GTTTGTAGGG
Statistics
Matches: 218, Mismatches: 33, Indels: 47
0.73 0.11 0.16
Matches are distributed among these distances:
20 3 0.01
21 36 0.17
22 37 0.17
23 72 0.33
24 1 0.00
25 2 0.01
26 59 0.27
27 8 0.04
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (21 bp):
AGGCATTGCGTGACTACTTAT
Found at i:8344025 original size:189 final size:186
Alignment explanation
Indices: 8343770--8344152 Score: 447
Period size: 189 Copynumber: 2.0 Consensus size: 186
8343760 TTGGATATTA
* * * * *
8343770 CGTGACTGACTTTGGGCATTACGTGACTGATTTTTGATAAGGTATTGCGTGACTAGTTTTTGATA
1 CGTGACTAACTTTGGGCATTACGTGACTGATTTTTGATAAGGCATTACATGACTAGTTTCTGATA
* * * * *
8343835 AGGCATTGC-TGACTAGTTAATAGGCATTACGTGAC-TGACTT-TGA-GTATTGCGTGACTAGTT
66 AGGCATTGCAAGACTAATTAATAGGCATTACGTGACTTG--TTATAAGGCATTGCGTGACT--TG
* *
8343896 TTTGATAAGGCATTGCGTGACTAGTTTCTAATAAGGCATTGCGTGACTAG-TTGATA-GGCATTG
127 TTAG-TAAGGCATTGCGTGACT--TAT-TAATAAGGCATTGCGTGACTAGTTTG-TAGGGCATTG
** *
8343959 CGTGACTAACTTTGGGCATTGTGTGCCT-AGTTTTTGATAAGGCATTACATGACTAGTTTCTGAT
1 CGTGACTAACTTTGGGCATTACGTGACTGA-TTTTTGATAAGGCATTACATGACTAGTTTCTGAT
* *
8344023 AAGGCATTGCAAGACTAATTTATAGGCATTGCGTGACTTGTTAGTAAGGCATTGCGTGACTTGTT
65 AAGGCATTGCAAGACTAATTAATAGGCATTACGTGACTTGTTA-TAAGGCATTGCGTGACTTGTT
*
8344088 AGTAAGGCATTGCGTGACTTATTAGTAAGGCATTGCGTGACTAGTTTGTAGGGCATTG
129 AGTAAGGCATTGCGTGACTTATTAATAAGGCATTGCGTGACTAGTTTGTAGGGCATTG
*
8344146 TGTGACT
1 CGTGACT
8344153 TAGGCATTAG
Statistics
Matches: 167, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
186 23 0.14
187 18 0.11
188 1 0.01
189 83 0.50
190 26 0.16
191 4 0.02
192 12 0.07
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.36
Consensus pattern (186 bp):
CGTGACTAACTTTGGGCATTACGTGACTGATTTTTGATAAGGCATTACATGACTAGTTTCTGATA
AGGCATTGCAAGACTAATTAATAGGCATTACGTGACTTGTTATAAGGCATTGCGTGACTTGTTAG
TAAGGCATTGCGTGACTTATTAATAAGGCATTGCGTGACTAGTTTGTAGGGCATTG
Found at i:8344076 original size:23 final size:23
Alignment explanation
Indices: 8344046--8344153 Score: 171
Period size: 23 Copynumber: 4.7 Consensus size: 23
8344036 ACTAATTTAT
8344046 AGGCATTGCGTGACTTGTTAGTA
1 AGGCATTGCGTGACTTGTTAGTA
8344069 AGGCATTGCGTGACTTGTTAGTA
1 AGGCATTGCGTGACTTGTTAGTA
*
8344092 AGGCATTGCGTGACTTATTAGTA
1 AGGCATTGCGTGACTTGTTAGTA
* *
8344115 AGGCATTGCGTGACTAGTTTGTA
1 AGGCATTGCGTGACTTGTTAGTA
* *
8344138 GGGCATTGTGTGACTT
1 AGGCATTGCGTGACTT
8344154 AGGCATTAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.21, C:0.13, G:0.31, T:0.35
Consensus pattern (23 bp):
AGGCATTGCGTGACTTGTTAGTA
Found at i:8344102 original size:46 final size:46
Alignment explanation
Indices: 8343833--8344154 Score: 184
Period size: 46 Copynumber: 6.9 Consensus size: 46
8343823 TAGTTTTTGA
* * *
8343833 TAAGGCATTGC-TGACTAGTTAAT-AGGCATTACGTGACTGACTT--
1 TAAGGCATTGCGTGACTAGTTAGTAAGGCATTGCGTGACTTA-TTAG
* * * * *
8343876 TGA-GTATTGCGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGTTTCTAA
1 TAAGGCATTGCGTGACTAG--TTAG-TAAGGCATTGCGTGACT--TAT-TAG
*
8343927 TAAGGCATTGCGTGACTAGTT-G-ATAGGCATTGCGTGACTAACTT--
1 TAAGGCATTGCGTGACTAGTTAGTA-AGGCATTGCGTGACTTA-TTAG
* * * * * * *
8343971 T-GGGCATTGTGTGCCTAGTTTTTGATAAGGCATTACATGAC-TAGTTTCTG
1 TAAGGCATTGCGTGACTAG--TTAG-TAAGGCATTGCGTGACTTA--TT-AG
** * *
8344021 ATAAGGCATTGCAAGACTAATT--TATAGGCATTGCGTGACTTGTTAG
1 -TAAGGCATTGCGTGACTAGTTAGTA-AGGCATTGCGTGACTTATTAG
*
8344067 TAAGGCATTGCGTGACTTGTTAGTAAGGCATTGCGTGACTTATTAG
1 TAAGGCATTGCGTGACTAGTTAGTAAGGCATTGCGTGACTTATTAG
* * *
8344113 TAAGGCATTGCGTGACTAGTTTGTAGGGCATTGTGTGACTTA
1 TAAGGCATTGCGTGACTAGTTAGTAAGGCATTGCGTGACTTA
8344155 GGCATTAGTT
Statistics
Matches: 214, Mismatches: 37, Indels: 53
0.70 0.12 0.17
Matches are distributed among these distances:
42 6 0.03
43 23 0.11
44 1 0.00
45 21 0.10
46 63 0.29
47 36 0.17
48 29 0.14
49 3 0.01
50 4 0.02
51 3 0.01
52 25 0.12
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (46 bp):
TAAGGCATTGCGTGACTAGTTAGTAAGGCATTGCGTGACTTATTAG
Found at i:8344218 original size:21 final size:21
Alignment explanation
Indices: 8344188--8344233 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8344178 GCAATATATA
* *
8344188 AAAACTAATCACGTAATGCCT
1 AAAACCAATCACGTAATGACT
*
8344209 AAAACCAATCATGTAATGACT
1 AAAACCAATCACGTAATGACT
8344230 AAAA
1 AAAA
8344234 ACTAGTCGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.22
Consensus pattern (21 bp):
AAAACCAATCACGTAATGACT
Found at i:8347959 original size:29 final size:29
Alignment explanation
Indices: 8347927--8347985 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
8347917 AGAGAAGAAT
8347927 TGAGAAAAAAACTT-TGGGTTCATTTCTCA
1 TGAGAAAAAAACTTCT-GGTTCATTTCTCA
*
8347956 TGAGAAAAGAACTTCTGGTTCATTTCTCA
1 TGAGAAAAAAACTTCTGGTTCATTTCTCA
8347985 T
1 T
8347986 TATTTCTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (29 bp):
TGAGAAAAAAACTTCTGGTTCATTTCTCA
Found at i:8355219 original size:19 final size:19
Alignment explanation
Indices: 8355170--8355219 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
8355160 AAAAGAATTA
8355170 TTATTTAAATATAACATAT
1 TTATTTAAATATAACATAT
** *
8355189 TTAAATAAATAT-ATATAT
1 TTATTTAAATATAACATAT
8355207 TTATTTAAGATAT
1 TTATTTAA-ATAT
8355220 GGAGATTGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TTATTTAAATATAACATAT
Found at i:8370452 original size:16 final size:16
Alignment explanation
Indices: 8370427--8370468 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
8370417 TATTATATTT
8370427 TATATATGTATATAAG
1 TATATATGTATATAAG
* * *
8370443 TATGTATGTATTTAAT
1 TATATATGTATATAAG
8370459 TATATATGTA
1 TATATATGTA
8370469 CATATCTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (16 bp):
TATATATGTATATAAG
Found at i:8370566 original size:2 final size:2
Alignment explanation
Indices: 8370559--8370605 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
8370549 TCTTTGCCAT
8370559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8370601 TA TA T
1 TA TA T
8370606 GCATGTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8373293 original size:99 final size:98
Alignment explanation
Indices: 8373122--8373320 Score: 380
Period size: 99 Copynumber: 2.0 Consensus size: 98
8373112 TTGAAATTGA
8373122 ATAATGATTTTGAAAAATAGAGTAATTGGAGACCACTTGTTATGTTGTGAAATTTATAATTTGAA
1 ATAATGATTTTGAAAAATAGAGTAATTGGAGACCACTTGTTATGTTGTGAAATTTATAATTTGAA
8373187 TCGAATGGCTTATGACAATATTTGCATGAATGG
66 TCGAATGGCTTATGACAATATTTGCATGAATGG
8373220 NATAATGATTTTGAAAAATAGAGTAATTGGAGACCACTTGTTATGTTGTGAAATTTATAATTTGA
1 -ATAATGATTTTGAAAAATAGAGTAATTGGAGACCACTTGTTATGTTGTGAAATTTATAATTTGA
*
8373285 ATCTAATGGCTTATGACAATATTTGCATGAATGG
65 ATCGAATGGCTTATGACAATATTTGCATGAATGG
8373319 AT
1 AT
8373321 GAATTGATAT
Statistics
Matches: 99, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
98 2 0.02
99 97 0.98
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (98 bp):
ATAATGATTTTGAAAAATAGAGTAATTGGAGACCACTTGTTATGTTGTGAAATTTATAATTTGAA
TCGAATGGCTTATGACAATATTTGCATGAATGG
Found at i:8379674 original size:104 final size:103
Alignment explanation
Indices: 8379494--8379700 Score: 396
Period size: 104 Copynumber: 2.0 Consensus size: 103
8379484 AGTTATGTTA
8379494 GTGTTTTTAGTTAGTTTATCATGTCTAGAAACAAACCAACAAGAAAAATTTATTTTCTCCCATTA
1 GTGTTTTTAGTTAGTTTATCATGTCTAGAAACAAACCAACAAGAAAAATTTATTTTCTCCCATTA
8379559 CCCATCATTGGTCGAATTTTCTAGGGAGGATATTGCGG
66 CCCATCATTGGTCGAATTTTCTAGGGAGGATATTGCGG
*
8379597 NGTGTTTTTAGTTAGTTTATCATGTCTAGGAACAAACCAACAAGAAAAATTTATTTTCTCCCATT
1 -GTGTTTTTAGTTAGTTTATCATGTCTAGAAACAAACCAACAAGAAAAATTTATTTTCTCCCATT
8379662 ACCCATCATTGGTCGAATTTTCTAGGGAGGATATTGCGG
65 ACCCATCATTGGTCGAATTTTCTAGGGAGGATATTGCGG
8379701 TTGAAATTGA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (103 bp):
GTGTTTTTAGTTAGTTTATCATGTCTAGAAACAAACCAACAAGAAAAATTTATTTTCTCCCATTA
CCCATCATTGGTCGAATTTTCTAGGGAGGATATTGCGG
Found at i:8379725 original size:10 final size:11
Alignment explanation
Indices: 8379707--8379743 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
8379697 GCGGTTGAAA
8379707 TTGATGATATT
1 TTGATGATATT
8379718 TT-ATGATATT
1 TTGATGATATT
*
8379728 TTGGTGATA-T
1 TTGATGATATT
8379738 TTGATG
1 TTGATG
8379744 TTTGGTGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (11 bp):
TTGATGATATT
Found at i:8449124 original size:23 final size:23
Alignment explanation
Indices: 8449071--8449125 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
8449061 TTTTAGACAA
* **
8449071 TCATGCAATGCCTTACTAATTAG
1 TCATGTAATGCCTTACTAACCAG
* *
8449094 TTACGTAATGCCTTACTAACCAG
1 TCATGTAATGCCTTACTAACCAG
8449117 TCATGTAAT
1 TCATGTAAT
8449126 ACTATGTCAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.35
Consensus pattern (23 bp):
TCATGTAATGCCTTACTAACCAG
Done.