Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007799.1 Hibiscus syriacus cultivar Beakdansim tig00110109_pilon, whole genome shotgun sequence
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: 1433344
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:838933 original size:342 final size:342
Alignment explanation
Indices: 838394--839390 Score: 1308
Period size: 342 Copynumber: 2.9 Consensus size: 342
838384 TTTTGATGAG
* *
838394 TTCTTCTCATTATGAACTT-TCTCTTCTTTCTTCAGAT---GAGTTCTTCTCATTATGAA-TTTC
1 TTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTC
* ** * * * * * * * ** * * *
838454 TCTGAAAAAGCTGCTTCATTAAGTGATGGATTTGAGC-AAAAGATTGAACAAATTCTTCTCATTG
65 CCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGATTGAACAAGTTCTTCTCATTA
* * * * *
838518 TGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTGGCAATGTTG
130 TGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTCACTGGAAAAGCTG
* * *
838583 ATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC
192 ATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
* * * **
838648 TTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGG
257 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAA-ATAATCCATCAAGTGATGAA
*
838713 TT-TGAGCAAAAGGTTGAACAAA
321 TTCAG-GCAAAAGGTTGAACAAA
* *
838735 TTCTTCTCATTGTGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCC
838800 CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG-TTGAACAAGTTCTTCTCATTAT
66 CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGATTGAACAAGTTCTTCTCATTAT
* **
838864 GAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCC
131 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCACTGGAAAAGCTGATCC
* ** ** * *
838929 ATCAAGTGATGGGTTTGAGCAAAAGGCTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
196 ATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
**** *
838994 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATAATCCATCAATTGATGAATTCAG
261 TTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAATAATCCATCAAGTGATGAATTCAG
*
839059 GTAAAAGGTTGAACAAA
326 GCAAAAGGTTGAACAAA
*
839076 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCC
* *
839141 CTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGATTGAACAAGTTCTTCTTATTAT
66 CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGATTGAACAAGTTCTTCTCATTAT
* * * *
839206 GAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGCTGATCC
131 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCACTGGAAAAGCTGATCC
* * *
839271 ATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
196 ATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
**** *
839336 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATAATCCATCCAGTG
261 TTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAATAATCCATCAAGTG
839391 GATTCGAAAT
Statistics
Matches: 576, Mismatches: 72, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
341 168 0.29
342 315 0.55
344 19 0.03
345 69 0.12
346 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (342 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCC
CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGATTGAACAAGTTCTTCTCATTAT
GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCACTGGAAAAGCTGATCC
ATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
TTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAATAATCCATCAAGTGATGAATTCAG
GCAAAAGGTTGAACAAA
Found at i:839881 original size:22 final size:22
Alignment explanation
Indices: 839802--839878 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
839792 AATAAAGCTT
* *
839802 TCATATTTGAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
* *
839824 TTATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
839846 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
839868 TCATCTTTGAA
1 TCATCTTTGAA
839879 GAGTGTAGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:842605 original size:117 final size:115
Alignment explanation
Indices: 842371--842687 Score: 465
Period size: 117 Copynumber: 2.7 Consensus size: 115
842361 GATCATGCAG
* * * * * * * *
842371 TTCATCTTTCAATTCCAATGATCGG-TTCTGGGGTTCCTATCGAATCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
842435 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGACCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGACCAAA
* *
842485 TTCATCTTTAAAATCTAATGATTGGTTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTTAA
1 TTCATCTTTAAAATCCAATGATTGG--TTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAA
* * * *
842550 AGAACACTTTCAGAAGATGCTATTGAGTCTTCTTATTTCTCCTATGAGCAAA
64 AGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGACCAAA
*
842602 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
842667 AACACTTCCAGAAGATGCTAT
66 AACACTTCCAGAAGATGCTAT
842688 GAGCACATGG
Statistics
Matches: 181, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
114 21 0.12
115 59 0.33
117 101 0.56
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (115 bp):
TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGACCAAA
Found at i:845281 original size:2 final size:2
Alignment explanation
Indices: 845274--845307 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
845264 ACAACAAAGG
845274 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
845308 TAAAGGATAA
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:848300 original size:14 final size:14
Alignment explanation
Indices: 848266--848319 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
848256 TTGTGCAATA
* *
848266 CAAATGCAAAGATG
1 CAAATGTAAATATG
848280 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
848295 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
848309 TAAATGTAAAT
1 CAAATGTAAAT
848320 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:851535 original size:15 final size:15
Alignment explanation
Indices: 851517--851567 Score: 86
Period size: 15 Copynumber: 3.4 Consensus size: 15
851507 TAAGTTTCTC
851517 TTCTTTCTTTTTCT-T
1 TTCTTTC-TTTTCTGT
851532 TTCTTTCTTTTCTGT
1 TTCTTTCTTTTCTGT
851547 TTCTTTCTTTTCTGT
1 TTCTTTCTTTTCTGT
851562 TTCTTT
1 TTCTTT
851568 GTATCTCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.17
15 29 0.83
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (15 bp):
TTCTTTCTTTTCTGT
Found at i:851536 original size:11 final size:11
Alignment explanation
Indices: 851520--851567 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 11
851510 GTTTCTCTTC
851520 TTTCTTTTTCT
1 TTTCTTTTTCT
851531 TTTC--TTTCT
1 TTTCTTTTTCT
*
851540 TTTCTGTTTC-
1 TTTCTTTTTCT
851550 TTTC-TTTTCT
1 TTTCTTTTTCT
851560 GTTTCTTT
1 -TTTCTTT
851568 GTATCTCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
9 13 0.42
10 4 0.13
11 12 0.39
12 2 0.06
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:851538 original size:24 final size:24
Alignment explanation
Indices: 851511--851559 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
851501 TGACAGTAAG
*
851511 TTTCTCTTCT-TTCTTTTTCTTTTC
1 TTTCTCTTCTGTT-TCTTTCTTTTC
*
851535 TTTCTTTTCTGTTTCTTTCTTTTC
1 TTTCTCTTCTGTTTCTTTCTTTTC
851559 T
1 T
851560 GTTTCTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTCTCTTCTGTTTCTTTCTTTTC
Found at i:852038 original size:3 final size:3
Alignment explanation
Indices: 852022--852096 Score: 134
Period size: 3 Copynumber: 25.3 Consensus size: 3
852012 TGTAATTTTA
*
852022 AAT AAT -AT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
852069 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
852097 TGAGTAAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:854206 original size:12 final size:12
Alignment explanation
Indices: 854189--854216 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
854179 CGAAGCTACT
854189 GCAGCGGCAGCA
1 GCAGCGGCAGCA
854201 GCAGCGGCAGCA
1 GCAGCGGCAGCA
854213 GCAG
1 GCAG
854217 TGGACACGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.32, G:0.43, T:0.00
Consensus pattern (12 bp):
GCAGCGGCAGCA
Found at i:856654 original size:17 final size:16
Alignment explanation
Indices: 856620--856704 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 16
856610 TATCAAAAGT
856620 ATATATACATAATGATAAA
1 ATATATA-AT-AT-ATAAA
856639 ATATAGTAATATATAAA
1 ATATA-TAATATATAAA
856656 ATATATAATAGTGATAAA
1 ATATATAATA-T-ATAAA
* * *
856674 A-AAATTATATATATAT
1 ATATATAATATATA-AA
856690 ATATATATATATATA
1 ATATATA-ATATATA
856705 TATATTAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
15 3 0.05
16 8 0.15
17 20 0.36
18 15 0.27
19 7 0.13
20 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (16 bp):
ATATATAATATATAAA
Found at i:856675 original size:19 final size:17
Alignment explanation
Indices: 856620--856674 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
856610 TATCAAAAGT
856620 ATATATACATAATGATAAA
1 ATATATA-AT-ATGATAAA
856639 ATATAGTAATAT-ATAAA
1 ATATA-TAATATGATAAA
856656 ATATATAATAGTGATAAA
1 ATATATAATA-TGATAAA
856674 A
1 A
856675 AAATTATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 5 0.15
17 11 0.33
18 8 0.24
19 7 0.21
20 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (17 bp):
ATATATAATATGATAAA
Found at i:856684 original size:2 final size:2
Alignment explanation
Indices: 856679--856709 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
856669 ATAAAAAAAT
856679 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 T
856710 TAAAATAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:856736 original size:3 final size:3
Alignment explanation
Indices: 856728--856811 Score: 50
Period size: 3 Copynumber: 27.7 Consensus size: 3
856718 CGAAAGAATA
* * *
856728 AAT AAT AAT AA- AA- AAGT AAA AAT AAT AAC AAT AAA AAT AAT AGAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* *
856773 AAT AAA AAT ATAT AAT TA- AAT -AT ATAT ATAT AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT A-AT A-AT AAT AAT AA
856812 ATATAATGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
2 7 0.11
3 42 0.66
4 15 0.23
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:856801 original size:18 final size:19
Alignment explanation
Indices: 856780--856816 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
856770 GATAATAAAA
856780 ATATATAAT-TAAATATAT
1 ATATATAATATAAATATAT
856798 ATATATAATAATAAATATA
1 ATATATAAT-ATAAATATA
856817 ATGTTGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATATAATATAAATATAT
Found at i:856810 original size:16 final size:18
Alignment explanation
Indices: 856773--856816 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
856763 AATAATAGAT
*
856773 AATAAAAATATATAATTA
1 AATAAATATATATAATTA
*
856791 AATATATATATATAA-T-
1 AATAAATATATATAATTA
856807 AATAAATATA
1 AATAAATATA
856817 ATGTTGGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 1 0.04
18 13 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAAATATATATAATTA
Found at i:856815 original size:14 final size:14
Alignment explanation
Indices: 856724--856816 Score: 56
Period size: 13 Copynumber: 6.7 Consensus size: 14
856714 ATAACGAAAG
856724 AATAAATA-ATAAT
1 AATAAATATATAAT
* *
856737 AAAAAAGTA-AAAAT
1 AATAAA-TATATAAT
856751 AATAACA-ATA-AA-
1 AATAA-ATATATAAT
*
856763 AAT-AATAGATAAT
1 AATAAATATATAAT
856776 AA-AAATATATAATT
1 AATAAATATATAA-T
856790 AAATATATATATATAAT
1 -AATA-A-ATATATAAT
856807 AATAAATATA
1 AATAAATATA
856817 ATGTTGGAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 23
0.69 0.05 0.25
Matches are distributed among these distances:
10 1 0.02
11 3 0.05
12 5 0.08
13 18 0.29
14 17 0.27
15 4 0.06
16 5 0.08
17 2 0.03
18 8 0.13
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (14 bp):
AATAAATATATAAT
Found at i:857316 original size:37 final size:37
Alignment explanation
Indices: 857265--857372 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
857255 CTTCTGGATC
* * * *
857265 TATTTTTAGAAGTTTGAATCATGGTAGAACTCTATCA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
*
857302 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCC
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
857339 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
857373 ACGCTATGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
Found at i:858113 original size:83 final size:83
Alignment explanation
Indices: 857859--858114 Score: 298
Period size: 83 Copynumber: 3.1 Consensus size: 83
857849 ACTCGACAAT
* * * * * * *
857859 TTTGTTGGCAGATAACCCTTATTGCCTTGAGTTATGCTGCAAATTTGATTTTCCTCTGAGTTGAA
1 TTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAA--TGATGTGCCTCAGAGCTGAG
* *
857924 TGTAATCGAACTCGAAGGTC
64 CGTAATCGAACTCGAAGGCC
* ** * **
857944 TTTGATGATTGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGTCTTGGAGCTGAGCG
1 TTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTCAGAGCTGAGCG
* *
858009 TAGTCGAACTCAAAGGCC
66 TAATCGAACTCGAAGGCC
* *
858027 TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGC
1 TTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTG-CCTCAGAGCTGAGC
*
858092 GTAATCGAACTTGAAGG-C
65 GTAATCGAACTCGAAGGCC
858110 TTTGT
1 TTTGT
858115 GTTTCAAGAG
Statistics
Matches: 143, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
83 81 0.57
84 24 0.17
85 38 0.27
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (83 bp):
TTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTCAGAGCTGAGCG
TAATCGAACTCGAAGGCC
Found at i:858269 original size:37 final size:35
Alignment explanation
Indices: 858179--858421 Score: 171
Period size: 36 Copynumber: 6.9 Consensus size: 35
858169 TTTTTTTGTG
* *
858179 TTTCAAGAGAAACTGTCTCAAGAGGGACAAAATTT
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTT
858214 TTTCCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGT
1 TTT-CAAAAGAAACTGTCTCAAGAGAGACAAAA-TT--T
* *
858253 TTT-AAAAGAAACTGTCTCAAGGGAGACGAAATTT
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTT
* * * * *
858287 GTTTC-AAGGAAAATATATTC-A-A-AG----ATTTT
1 -TTTCAAAAGAAACTGT-CTCAAGAGAGACAAAATTT
** * *
858316 GTTTCAAGGGAAACTGTCCCACGAGAGACAAAATTT
1 -TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTT
** *
858352 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTT
1 -TTTCAAAAGAAACTGTCTCAAGAGAGACAA-AATTT
**
858389 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTTCAAAAGAAACTGTCTCAAGAGAGACAAAA
858422 CTTGGAAACT
Statistics
Matches: 171, Mismatches: 21, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
29 10 0.06
30 8 0.05
31 1 0.01
32 2 0.01
33 2 0.01
34 1 0.01
35 15 0.09
36 65 0.38
37 63 0.37
39 4 0.02
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:859341 original size:32 final size:32
Alignment explanation
Indices: 859287--859354 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
859277 TCGATGTTGG
* *
859287 ATCTAAAAAAATGTCCCAACATTTGATGTTAA
1 ATCTAAAAAAATGACCCAACATTTGATATTAA
* *
859319 ATCTAAAAAAAT-ACCCTTACATTTGATATTGA
1 ATCTAAAAAAATGACCC-AACATTTGATATTAA
859351 ATCT
1 ATCT
859355 TCAAAGTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (32 bp):
ATCTAAAAAAATGACCCAACATTTGATATTAA
Found at i:859447 original size:21 final size:21
Alignment explanation
Indices: 859423--859472 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
859413 TTTGTGTTTG
*
859423 AGAGCCACATGTCATTTACCA
1 AGAGCCACATGTCATTTACAA
859444 AGAGCCACATGTCATTTACAA
1 AGAGCCACATGTCATTTACAA
*
859465 AGATCCAC
1 AGAGCCAC
859473 TCTAGAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (21 bp):
AGAGCCACATGTCATTTACAA
Found at i:863541 original size:16 final size:16
Alignment explanation
Indices: 863500--863570 Score: 63
Period size: 16 Copynumber: 4.3 Consensus size: 16
863490 AAAAAGTAAT
* *
863500 AAAATGAACATCAAGA
1 AAAATGAAAATAAAGA
*
863516 AAATAT-AAAATAAATA
1 AAA-ATGAAAATAAAGA
863532 AAAATGAAAATAAAGTA
1 AAAATGAAAATAAAG-A
* *
863549 GAAAAGGAAAAAAAAGA
1 -AAAATGAAAATAAAGA
863566 AAAAT
1 AAAAT
863571 ATACATATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
15 2 0.05
16 25 0.57
17 4 0.09
18 13 0.30
ACGTcount: A:0.72, C:0.03, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAATGAAAATAAAGA
Found at i:863690 original size:35 final size:37
Alignment explanation
Indices: 863637--863715 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
863627 TATCAAAAGT
863637 ATATATACATAGTGATAAAATATAGTA-ATATATA-AA
1 ATATATACATAGTGATAAAATATA-TATATATATATAA
*
863673 ATATATA-ATAGTGATAAAATATATATATATATATAT
1 ATATATACATAGTGATAAAATATATATATATATATAA
863709 ATATATA
1 ATATATA
863716 TATATATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
34 2 0.05
35 23 0.57
36 15 0.38
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.38
Consensus pattern (37 bp):
ATATATACATAGTGATAAAATATATATATATATATAA
Found at i:863696 original size:2 final size:2
Alignment explanation
Indices: 863691--863729 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
863681 TAGTGATAAA
863691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
863730 GATTAAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:863757 original size:3 final size:3
Alignment explanation
Indices: 863751--863828 Score: 51
Period size: 3 Copynumber: 26.7 Consensus size: 3
863741 TGAAAGAATA
* *
863751 AAT AAT AAT AA- AA- AAGT AA- AAA AAT AAT AAT AAA AAT AAT AGAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
863795 AAT AA- AAT ATAT AAT TA- AAT -AT ATAT AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AA
863829 ATATATTGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
2 11 0.18
3 39 0.64
4 11 0.18
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:863787 original size:12 final size:12
Alignment explanation
Indices: 863750--863831 Score: 69
Period size: 14 Copynumber: 6.4 Consensus size: 12
863740 ATGAAAGAAT
863750 AAATAATAATAA
1 AAATAATAATAA
*
863762 AAA-AGTAA-AA
1 AAATAATAATAA
863772 AAATAATAATAA
1 AAATAATAATAA
863784 AAATAATAGATAATA
1 AAATAATA-AT-A-A
863799 AAATATATAATTAA
1 AAATA-ATAA-TAA
*
863813 ATATATATAATAA
1 AAATA-ATAATAA
863826 TAAATA
1 -AAATA
863832 TATTGTTGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
10 5 0.09
11 8 0.14
12 13 0.22
13 5 0.09
14 15 0.26
15 8 0.14
16 4 0.07
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:863801 original size:29 final size:29
Alignment explanation
Indices: 863769--863829 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
863759 TAAAAAAGTA
863769 AAAAAATAATAA-TAAAAATA-ATAGATAAT
1 AAAAAAT-ATAATTAAAAATATATA-ATAAT
* *
863798 AAAATATATAATTAAATATATATAATAAT
1 AAAAAATATAATTAAAAATATATAATAAT
863827 AAA
1 AAA
863830 TATATTGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.14
29 21 0.75
30 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAAAATATAATTAAAAATATATAATAAT
Found at i:863820 original size:16 final size:16
Alignment explanation
Indices: 863774--863834 Score: 76
Period size: 16 Copynumber: 4.0 Consensus size: 16
863764 AAGTAAAAAA
*
863774 ATAATAATAAAAATA-
1 ATAATAATAAATATAT
863789 ATAGATAATAAA-ATAT
1 ATA-ATAATAAATATAT
863805 ATAAT--TAAATATAT
1 ATAATAATAAATATAT
863819 ATAATAATAAATATAT
1 ATAATAATAAATATAT
863835 TGTTGAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
13 4 0.10
14 9 0.22
15 8 0.20
16 20 0.49
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
ATAATAATAAATATAT
Found at i:864086 original size:37 final size:37
Alignment explanation
Indices: 864036--864147 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
864026 ATGCTTCTGG
*
864036 ATCTTATTTTTAGGAGTTTGAATCATAGTAGAACTCT
1 ATCTTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
864073 ATCTTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCTTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
* * *
864110 ATCATATTTTTAGGAGTTTAAACCATAGTAAAACTCT
1 ATCTTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
864147 A
1 A
864148 ACGCTATGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (37 bp):
ATCTTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:864370 original size:37 final size:37
Alignment explanation
Indices: 864320--864393 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
864310 GTTCTAGTTA
864320 GTTTTATCATAAAAGGGTTAAAATATGTTTATACATT
1 GTTTTATCATAAAAGGGTTAAAATATGTTTATACATT
864357 GTTTTATCATAAAAGGGTTAAAATATGTTTATACATT
1 GTTTTATCATAAAAGGGTTAAAATATGTTTATACATT
864394 TAAAATATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (37 bp):
GTTTTATCATAAAAGGGTTAAAATATGTTTATACATT
Found at i:865969 original size:7 final size:7
Alignment explanation
Indices: 865959--865983 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
865949 TAAGATCAGA
865959 ACAATAT
1 ACAATAT
865966 ACAATAT
1 ACAATAT
865973 ACAATAT
1 ACAATAT
865980 ACAA
1 ACAA
865984 AAACAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (7 bp):
ACAATAT
Found at i:868480 original size:43 final size:43
Alignment explanation
Indices: 868419--868536 Score: 202
Period size: 43 Copynumber: 2.8 Consensus size: 43
868409 AATCCAAGTA
*
868419 GTCTACACCTATGAGATTGATTACGGATTCGTAACGGCTAGTT
1 GTCTACACCTATGAGATTGATTACGGATTCATAACGGCTAGTT
868462 GTCTACACCTATGAGATTGATTACGGATTCATAACGGCTAGTT
1 GTCTACACCTATGAGATTGATTACGGATTCATAACGGCTAGTT
* *
868505 GTCTACACCTATGAGATTAATTACAG-TTCATA
1 GTCTACACCTATGAGATTGATTACGGATTCATA
868537 TAGTTAACTT
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 6 0.08
43 66 0.92
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (43 bp):
GTCTACACCTATGAGATTGATTACGGATTCATAACGGCTAGTT
Found at i:873593 original size:20 final size:20
Alignment explanation
Indices: 873568--873610 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
873558 TCTAAAAACC
*
873568 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
873588 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
873608 CAT
1 CAT
873611 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:875395 original size:53 final size:53
Alignment explanation
Indices: 875332--875481 Score: 248
Period size: 53 Copynumber: 2.8 Consensus size: 53
875322 TAACTAGATA
*
875332 TTTTATTCTGTTAGTTATTCGATAGAATCAATTTTAATTAGATATAATCAGTT
1 TTTTATTCTGTTAGTTATTAGATAGAATCAATTTTAATTAGATATAATCAGTT
* *
875385 TTTTATTCTGTTAGTTATTATATAGAATCAGTTTTAATTAGATATAATCAGTT
1 TTTTATTCTGTTAGTTATTAGATAGAATCAATTTTAATTAGATATAATCAGTT
*
875438 TTTTATTCTGTTAGTTATTAGATAGGATCAATTGTT-ATTAGATA
1 TTTTATTCTGTTAGTTATTAGATAGAATCAATT-TTAATTAGATA
875482 GGATCAATTT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 88 0.98
54 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (53 bp):
TTTTATTCTGTTAGTTATTAGATAGAATCAATTTTAATTAGATATAATCAGTT
Found at i:875476 original size:20 final size:20
Alignment explanation
Indices: 875451--875507 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
875441 TATTCTGTTA
875451 GTTATTAGATAGGATCAATT
1 GTTATTAGATAGGATCAATT
875471 GTTATTAGATAGGATCAATT
1 GTTATTAGATAGGATCAATT
*
875491 -TTAATTAGATAGAATCA
1 GTT-ATTAGATAGGATCA
875508 GTTTTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 2 0.06
20 33 0.94
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (20 bp):
GTTATTAGATAGGATCAATT
Found at i:880123 original size:53 final size:53
Alignment explanation
Indices: 880058--880165 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
880048 TAACTAGATA
*
880058 TTTTATTCTGTTAGTTATTAGATAGGATCAATTTTAATTAGATAGAATCAATT
1 TTTTATTATGTTAGTTATTAGATAGGATCAATTTTAATTAGATAGAATCAATT
* *
880111 TTTTATTATGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTT
1 TTTTATTATGTTAGTTATTAGATAGGATCAATTTTAATTAGATAGAATCAATT
880164 TT
1 TT
880166 ATTCTGTTGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (53 bp):
TTTTATTATGTTAGTTATTAGATAGGATCAATTTTAATTAGATAGAATCAATT
Found at i:880152 original size:20 final size:20
Alignment explanation
Indices: 880074--880166 Score: 74
Period size: 20 Copynumber: 5.0 Consensus size: 20
880064 TCTGTTAGTT
*
880074 ATTAGATAGGATCAATTTTA
1 ATTAGATAGGATCAGTTTTA
* *
880094 ATTAGATAGAATCAATTTT-
1 ATTAGATAGGATCAGTTTTA
* * *
880113 -TTA-TTATG-TTAG--TT-
1 ATTAGATAGGATCAGTTTTA
880127 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGGATCAGTTTTA
*
880147 ATTAGATAGAATCAGTTTTA
1 ATTAGATAGGATCAGTTTTA
880167 TTCTGTTGCT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 2 0.04
15 3 0.05
16 5 0.09
17 5 0.09
18 3 0.05
19 2 0.04
20 37 0.65
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (20 bp):
ATTAGATAGGATCAGTTTTA
Found at i:885507 original size:23 final size:23
Alignment explanation
Indices: 885477--885538 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
885467 TGAATGATTT
885477 AGTGCTGACTGATTCAGCAAAAC
1 AGTGCTGACTGATTCAGCAAAAC
885500 AGTGCTGACTGATTCAGCAAAAC
1 AGTGCTGACTGATTCAGCAAAAC
*
885523 AGTGCTGAATGATTCA
1 AGTGCTGACTGATTCA
885539 ACATCAAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (23 bp):
AGTGCTGACTGATTCAGCAAAAC
Found at i:889022 original size:66 final size:66
Alignment explanation
Indices: 888915--889050 Score: 245
Period size: 66 Copynumber: 2.1 Consensus size: 66
888905 AAGGCATCTC
* **
888915 CACCTAGGGGTGAAAGTCCTGATAGACGGAGCCGCGGTGGACGGTCTCCAAGTCCTCGAAGTGTT
1 CACCTAGGGGTGAAAGTCCTGATAGACGGAACCGCAATGGACGGTCTCCAAGTCCTCGAAGTGTT
888980 T
66 T
888981 CACCTAGGGGTGAAAGTCCTGATAGACGGAACCGCAATGGACGGTCTCCAAGTCCTCGAAGTGTT
1 CACCTAGGGGTGAAAGTCCTGATAGACGGAACCGCAATGGACGGTCTCCAAGTCCTCGAAGTGTT
889046 T
66 T
889047 CACC
1 CACC
889051 GTGAGGCCGA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.24, C:0.26, G:0.30, T:0.21
Consensus pattern (66 bp):
CACCTAGGGGTGAAAGTCCTGATAGACGGAACCGCAATGGACGGTCTCCAAGTCCTCGAAGTGTT
T
Found at i:893652 original size:25 final size:25
Alignment explanation
Indices: 893624--893676 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
893614 AGCAAAATTG
893624 ATGGATCTGAACTTCTGATACATGA
1 ATGGATCTGAACTTCTGATACATGA
*
893649 ATGGATCTGAACTTCTGATACATTA
1 ATGGATCTGAACTTCTGATACATGA
893674 ATG
1 ATG
893677 TATCAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (25 bp):
ATGGATCTGAACTTCTGATACATGA
Found at i:895266 original size:22 final size:22
Alignment explanation
Indices: 895238--895280 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
895228 ACTGTAAGTA
895238 TCGCCAACTCGTTTAAATGCAC
1 TCGCCAACTCGTTTAAATGCAC
895260 TCGCCAACTCGTTTAAATGCA
1 TCGCCAACTCGTTTAAATGCA
895281 TTTGGGACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (22 bp):
TCGCCAACTCGTTTAAATGCAC
Found at i:908120 original size:19 final size:20
Alignment explanation
Indices: 908096--908138 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
908086 ATTTTATTTA
*
908096 TTTTTTTACAAT-TTTTCAT
1 TTTTTTTACAATATTTACAT
*
908115 TTTTTTTATAATATTTACAT
1 TTTTTTTACAATATTTACAT
908135 TTTT
1 TTTT
908139 AAAATAAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTTTACAATATTTACAT
Found at i:913715 original size:2 final size:2
Alignment explanation
Indices: 913708--913738 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
913698 ACTAAAACAA
913708 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
913739 GTTTGAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:924203 original size:13 final size:13
Alignment explanation
Indices: 924185--924210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
924175 TAAACTTAGA
924185 AATAAAATATCTG
1 AATAAAATATCTG
924198 AATAAAATATCTG
1 AATAAAATATCTG
924211 TCTTCCCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
AATAAAATATCTG
Found at i:929281 original size:64 final size:64
Alignment explanation
Indices: 929148--929307 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 64
929138 TAATGAAGGT
* * ** *
929148 ATGCATCGATGCAC-CACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCACTC-CTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAAAGAG
* * *
929212 ATGCATCGATGCACTCCTTATGCATCGATGCATTAATTGCATTCGATGTT-T-TTATCTTAAA-A
1 ATGCATCGATGCACTCCTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTA--TTAAAGA
929274 G
64 G
929275 AGTGCATCGATGCACTACC-AATGCATCGATGCA
1 A-TGCATCGATGCACT-CCTAATGCATCGATGCA
929308 CTACCAATGC
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
62 3 0.04
63 3 0.04
64 74 0.89
65 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTCCTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAAAGAG
Found at i:929301 original size:19 final size:19
Alignment explanation
Indices: 929277--929323 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
929267 CTTAAAAGAG
929277 TGCATCGATGCACTACCAA
1 TGCATCGATGCACTACCAA
929296 TGCATCGATGCACTACCAA
1 TGCATCGATGCACTACCAA
929315 TGCATCGAT
1 TGCATCGAT
929324 ACACCTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (19 bp):
TGCATCGATGCACTACCAA
Found at i:934357 original size:64 final size:64
Alignment explanation
Indices: 934224--934383 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 64
934214 TAATGAAGGT
* * ** *
934224 ATGCATCGATGCAC-CACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCACTC-CTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAAAGAG
* * *
934288 ATGCATCGATGCACTCCTTATGCATCGATGCATTAATTGCATTCGATGTT-T-TTATCTTAAA-A
1 ATGCATCGATGCACTCCTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTA--TTAAAGA
934350 G
64 G
934351 AGTGCATCGATGCACTACC-AATGCATCGATGCA
1 A-TGCATCGATGCACT-CCTAATGCATCGATGCA
934384 CTACCAATGC
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
62 3 0.04
63 3 0.04
64 74 0.89
65 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTCCTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTAAAGAG
Found at i:934377 original size:19 final size:19
Alignment explanation
Indices: 934353--934399 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
934343 CTTAAAAGAG
934353 TGCATCGATGCACTACCAA
1 TGCATCGATGCACTACCAA
934372 TGCATCGATGCACTACCAA
1 TGCATCGATGCACTACCAA
934391 TGCATCGAT
1 TGCATCGAT
934400 ACACCTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (19 bp):
TGCATCGATGCACTACCAA
Found at i:941403 original size:216 final size:216
Alignment explanation
Indices: 941026--941804 Score: 1007
Period size: 216 Copynumber: 3.6 Consensus size: 216
941016 ATACATAACA
* * * *
941026 AGTCTAGTTCCAAAAGTGAAGTTTCCCAGAGTGTTAAGCTGCAGGAGGAAGAAAATACTGGTGCT
1 AGTCTAGTTCCAAAAGCGAAGTTCCCCACAGTGTTAAGCTGGAGGAGGAAGAAAATACTGGTGCT
* * *
941091 GAAGAAAATGGGGAGAGAA-TAGGTGAAATTGAGGGTACCATTTCAAATACGGAGTCTAAGATAG
66 GAGGAAAATGGGGAGAGAAGT-GGTAAAATTGAGGGTACCACTTCAAATACGGAGTCTAAGATAG
* * * * * *
941155 ATTCAGTTCCTGATGTAGAACAGGCTTCTCCTCCATTGGCAGCTCCTTCCATTGAAACTGTAATT
130 ATTTAGTTCCTGATATAGAACAGTCTTCTCCTCCATTGGCAGCTCCTGCCATTGAAAGTGAAATT
* **
941220 ACAACTGAGTTAGCTTCTGCGG
195 ACAACTGAATTAGCTTCTATGG
* * *
941242 AGGCTAGTTCCAAAAGCGATGTTCCCCACAGTGTTAAGCTGGAGGAGAAAGAAAATACTGGTGCT
1 AGTCTAGTTCCAAAAGCGAAGTTCCCCACAGTGTTAAGCTGGAGGAGGAAGAAAATACTGGTGCT
*
941307 GAGGAAAATGGGGAGAGAA-TGGATAAAATTGAGGGTACCGCTTCAAATACGGAGTCTAAGATAG
66 GAGGAAAATGGGGAGAGAAGTGG-TAAAATTGAGGGTACCACTTCAAATACGGAGTCTAAGATAG
* * * * * * * *
941371 ATTTAGTTTCTGATCTATAACAGTCATCTCCTCCAATGGCAACTCCTGCTATGGAAAGTGAAATT
130 ATTTAGTTCCTGATATAGAACAGTCTTCTCCTCCATTGGCAGCTCCTGCCATTGAAAGTGAAATT
* *
941436 ATAACTGAATTAACTTCTATGG
195 ACAACTGAATTAGCTTCTATGG
* *
941458 AGTCTAGTTCCAAAAGCGAAGTTCCCCACAGTGTTAAGCTGGAGGAGGAAGAAAATACCGGAGCT
1 AGTCTAGTTCCAAAAGCGAAGTTCCCCACAGTGTTAAGCTGGAGGAGGAAGAAAATACTGGTGCT
* * * * * *
941523 GATGAAAATGGGGAGAGAATTGGTAAAATTGAGGGTACTACTTCAAATACAGAGTC-AACGGTAA
66 GAGGAAAATGGGGAGAGAAGTGGTAAAATTGAGGGTACCACTTCAAATACGGAGTCTAA-GATAG
* * *
941587 ATGTAGTTCCTGATATAGAAAAGTCTTCTCCTCCATTGGCAGCTTCTGCCATTGAAAGTGAAATT
130 ATTTAGTTCCTGATATAGAACAGTCTTCTCCTCCATTGGCAGCTCCTGCCATTGAAAGTGAAATT
* * *
941652 AGAACTGAATTAGCTTCTTTAG
195 ACAACTGAATTAGCTTCTATGG
*
941674 AGTCTAGTTCCAAAAGCTAAGTT--CC-CAGTGTTAAGCTGGAGGAGGAAGAAAATACTGGTGCT
1 AGTCTAGTTCCAAAAGCGAAGTTCCCCACAGTGTTAAGCTGGAGGAGGAAGAAAATACTGGTGCT
* * ** *
941736 GAGGAAAAAT-GTGAGAGAAGTGGTAAAATT-ATGGGTACTACTTTGAATACGGAGTCTAAGATG
66 GAGG-AAAATGGGGAGAGAAGTGGTAAAATTGA-GGGTACCACTTCAAATACGGAGTCTAAGATA
941799 GATTTA
129 GATTTA
941805 ACAGTGGAAG
Statistics
Matches: 489, Mismatches: 68, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
212 1 0.00
213 83 0.17
214 9 0.02
215 4 0.01
216 389 0.80
217 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (216 bp):
AGTCTAGTTCCAAAAGCGAAGTTCCCCACAGTGTTAAGCTGGAGGAGGAAGAAAATACTGGTGCT
GAGGAAAATGGGGAGAGAAGTGGTAAAATTGAGGGTACCACTTCAAATACGGAGTCTAAGATAGA
TTTAGTTCCTGATATAGAACAGTCTTCTCCTCCATTGGCAGCTCCTGCCATTGAAAGTGAAATTA
CAACTGAATTAGCTTCTATGG
Found at i:945854 original size:18 final size:19
Alignment explanation
Indices: 945819--945855 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
945809 CACGGAATGT
945819 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
945839 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
945856 GGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:946569 original size:13 final size:13
Alignment explanation
Indices: 946551--946579 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
946541 AAACAGAACA
946551 TGTAGGTGTGCCT
1 TGTAGGTGTGCCT
946564 TGTAGGTGTGCCT
1 TGTAGGTGTGCCT
946577 TGT
1 TGT
946580 GCGTGAGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.38, T:0.41
Consensus pattern (13 bp):
TGTAGGTGTGCCT
Found at i:951724 original size:40 final size:39
Alignment explanation
Indices: 951662--951744 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 39
951652 ATGCAAATTT
*
951662 CATA-AGAAAAATAACCCTTTTTGCCAAACTTGAAAATAA
1 CATATAGAAAAAGAACCCTTTTTGCCAAACTTG-AAATAA
*
951701 CATATAGAAAAAGAA-CCTATTTTGCCAAACTTGAAATGA
1 CATATAGAAAAAGAACCCT-TTTTGCCAAACTTGAAATAA
951740 CATAT
1 CATAT
951745 GCGTTGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 17 0.43
40 23 0.57
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (39 bp):
CATATAGAAAAAGAACCCTTTTTGCCAAACTTGAAATAA
Found at i:958204 original size:21 final size:21
Alignment explanation
Indices: 958178--958217 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
958168 TTTAAATTCA
*
958178 ATGATGACATGTCATTATCTT
1 ATGATGACATGTCAGTATCTT
958199 ATGATGACATGTCAGTATC
1 ATGATGACATGTCAGTATC
958218 ACTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATGATGACATGTCAGTATCTT
Found at i:960709 original size:14 final size:14
Alignment explanation
Indices: 960690--960716 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
960680 AATTAATAGT
960690 TAGATGATTGAAAA
1 TAGATGATTGAAAA
960704 TAGATGATTGAAA
1 TAGATGATTGAAA
960717 TTAACCATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (14 bp):
TAGATGATTGAAAA
Found at i:976703 original size:31 final size:31
Alignment explanation
Indices: 976667--976725 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
976657 AACTTAAAAG
*
976667 AGTTTTGCAATACTAAAATTTAAATAATTTT
1 AGTTTTACAATACTAAAATTTAAATAATTTT
*
976698 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTAAAATTTAAATAAT
976726 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTAAAATTTAAATAATTTT
Found at i:976776 original size:22 final size:22
Alignment explanation
Indices: 976750--976792 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
976740 TAATAAATTA
976750 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
976772 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
976793 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:976801 original size:22 final size:22
Alignment explanation
Indices: 976752--976800 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
976742 ATAAATTATT
**
976752 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
976774 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
976797 TAAA
1 TAAA
976801 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:976810 original size:32 final size:32
Alignment explanation
Indices: 976772--977033 Score: 154
Period size: 32 Copynumber: 9.4 Consensus size: 32
976762 CAATCCATAT
976772 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
976804 TTTAAAATAAATCGATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
976834 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
976852 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
976884 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
976906 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
976938 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
976960 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * **
976992 TTTTAAATAAAT-TAT-TTTA-TAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
977021 TTTTAAAATAAAT
1 -TTTAAAATAAAT
977034 TATTTTAAAA
Statistics
Matches: 183, Mismatches: 10, Indels: 76
0.68 0.04 0.28
Matches are distributed among these distances:
20 1 0.01
22 45 0.25
23 5 0.03
24 4 0.02
25 1 0.01
26 20 0.11
28 7 0.04
29 10 0.05
30 16 0.09
31 7 0.04
32 67 0.37
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:976845 original size:80 final size:80
Alignment explanation
Indices: 976755--976904 Score: 282
Period size: 80 Copynumber: 1.9 Consensus size: 80
976745 AATTATTTAA
*
976755 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCGAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
976820 CCATACAACTACAAT
66 CCATACAACTACAAT
*
976835 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
976900 CCATA
66 CCATA
976905 TTTTAAAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:976904 original size:54 final size:54
Alignment explanation
Indices: 976835--977003 Score: 304
Period size: 54 Copynumber: 3.1 Consensus size: 54
976825 CAACTACAAT
976835 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
*
976889 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
*
976943 AATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTTA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCT-ATACTAATAAATTATTTAA
976997 AATAAAT
1 AATAAAT
977004 TATTTTATAA
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
54 111 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
Found at i:976910 original size:22 final size:22
Alignment explanation
Indices: 976884--976926 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
976874 TAATAAATTA
976884 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
976906 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
976927 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:976935 original size:22 final size:22
Alignment explanation
Indices: 976886--976934 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
976876 ATAAATTATT
**
976886 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
976908 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
976931 TAAA
1 TAAA
976935 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:976964 original size:22 final size:22
Alignment explanation
Indices: 976938--976980 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
976928 TAATAAATTA
976938 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
976960 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
976981 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:976989 original size:22 final size:22
Alignment explanation
Indices: 976940--976988 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
976930 ATAAATTATT
**
976940 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
976962 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
976985 TAAA
1 TAAA
976989 TTATTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:977017 original size:15 final size:15
Alignment explanation
Indices: 976983--977048 Score: 116
Period size: 15 Copynumber: 4.5 Consensus size: 15
976973 AATTCATACT
976983 AATAAATTATTTT-A
1 AATAAATTATTTTAA
*
976997 AATAAATTATTTTAT
1 AATAAATTATTTTAA
977012 AATAAATTATTTTAA
1 AATAAATTATTTTAA
977027 AATAAATTATTTTAA
1 AATAAATTATTTTAA
977042 AATAAAT
1 AATAAAT
977049 AACCTTATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
14 13 0.27
15 36 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:977032 original size:30 final size:30
Alignment explanation
Indices: 976957--977048 Score: 123
Period size: 30 Copynumber: 3.0 Consensus size: 30
976947 AATCAATCCA
* *
976957 TATTTTAAAATAAATCAATTCATACTAATAAAT
1 TATTTTAAAATAAAT-TATT-TTA-TAATAAAT
976990 TATTTT-AAATAAATTATTTTATAATAAAT
1 TATTTTAAAATAAATTATTTTATAATAAAT
*
977019 TATTTTAAAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATTATTTTATAATAAAT
977049 AACCTTATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
29 14 0.25
30 24 0.44
31 3 0.05
32 8 0.15
33 6 0.11
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (30 bp):
TATTTTAAAATAAATTATTTTATAATAAAT
Found at i:977456 original size:17 final size:17
Alignment explanation
Indices: 977434--977466 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
977424 AACTTTAATC
977434 TCAAATGTTT-TAATTAT
1 TCAAAT-TTTATAATTAT
977451 TCAAATTTTATAATTA
1 TCAAATTTTATAATTA
977467 ATATAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
TCAAATTTTATAATTAT
Found at i:978013 original size:2 final size:2
Alignment explanation
Indices: 978006--978030 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
977996 TTCTTTCTTT
978006 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 T
978031 GTCTAATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:979579 original size:17 final size:17
Alignment explanation
Indices: 979536--979587 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
979526 CATACAGTAG
*
979536 AAACTCTTTAAATTAAT
1 AAACTCTCTAAATTAAT
**
979553 --ACTCGGTAAATTAAT
1 AAACTCTCTAAATTAAT
*
979568 AAACTCTCTAAAATAAT
1 AAACTCTCTAAATTAAT
979585 AAA
1 AAA
979588 TTTGTCCGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
AAACTCTCTAAATTAAT
Found at i:981716 original size:30 final size:30
Alignment explanation
Indices: 981682--981749 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
981672 CCTTTGTAGG
*
981682 CCCATATACAATATTGATATCTTTTATAAT
1 CCCATATACAATACTGATATCTTTTATAAT
* **
981712 CCCATGTACCGTACTGATATCTTTTATAAT
1 CCCATATACAATACTGATATCTTTTATAAT
*
981742 ACCATATA
1 CCCATATA
981750 TTAACCCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.40
Consensus pattern (30 bp):
CCCATATACAATACTGATATCTTTTATAAT
Found at i:981763 original size:12 final size:12
Alignment explanation
Indices: 981743--981800 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
981733 TTTTATAATA
* *
981743 CCATATATTAAC
1 CCATGTATTAGC
*
981755 CCATGTATTAGT
1 CCATGTATTAGC
*
981767 CAATGTATTAGC
1 CCATGTATTAGC
981779 CCATGTATTAGC
1 CCATGTATTAGC
*
981791 CCATATATTA
1 CCATGTATTA
981801 TATATGCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (12 bp):
CCATGTATTAGC
Found at i:981799 original size:24 final size:24
Alignment explanation
Indices: 981743--981800 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
981733 TTTTATAATA
*
981743 CCATATATTAACCCATGTATTAGT
1 CCATATATTAACCCATGTATTAGC
* * *
981767 CAATGTATTAGCCCATGTATTAGC
1 CCATATATTAACCCATGTATTAGC
981791 CCATATATTA
1 CCATATATTA
981801 TATATGCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (24 bp):
CCATATATTAACCCATGTATTAGC
Found at i:981937 original size:38 final size:37
Alignment explanation
Indices: 981891--981989 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 37
981881 ACAGCTCGTA
* *
981891 TAATTGTGTCCCGAAGGACCTGTCATCCCGAAA-GATG
1 TAATTGTGTCCCGAAAGACCTATCATCCC-AAAGGATG
*
981928 TAATATGTGTCCCGAAAGACTTATCATCCCAAAGGATG
1 TAAT-TGTGTCCCGAAAGACCTATCATCCCAAAGGATG
* *
981966 T--TTGTGTCCCGAATGACCGATCAT
1 TAATTGTGTCCCGAAAGACCTATCAT
981990 ATGACTCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
35 19 0.35
36 1 0.02
37 7 0.13
38 27 0.50
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (37 bp):
TAATTGTGTCCCGAAAGACCTATCATCCCAAAGGATG
Found at i:984904 original size:16 final size:18
Alignment explanation
Indices: 984879--984937 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 18
984869 GGTTGAAGAA
*
984879 TTTTAGAATTTT-G-TAT
1 TTTTAAAATTTTAGATAT
984895 TTTTAAAATTTTAGATAT
1 TTTTAAAATTTTAGATAT
*
984913 TTTTAGAATATTTATAGAAAT
1 TTTTA-AA-ATTT-TAGATAT
984934 TTTT
1 TTTT
984938 GGCACAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
16 11 0.31
17 1 0.03
18 8 0.22
19 2 0.06
20 4 0.11
21 10 0.28
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (18 bp):
TTTTAAAATTTTAGATAT
Found at i:985317 original size:59 final size:59
Alignment explanation
Indices: 985185--985321 Score: 154
Period size: 59 Copynumber: 2.3 Consensus size: 59
985175 GTCTTTAGCA
* * ** *
985185 TTTTGAATATTCTAATTTAAACCTCAAACTATGACTCTCATTCTAAATTAGTTCTTAAAT
1 TTTTGAATATTCTAA-TTAAACCTCAAACTATGACTCTCATTCTAAATTAATCCCCAAAC
* *
985245 TTTTAAATATTCTAATTACATCC-CTAAACTATGA-TCCTC-TTCTAAATTAATCCCCAAAC
1 TTTTGAATATTCTAATTA-AACCTC-AAACTATGACT-CTCATTCTAAATTAATCCCCAAAC
985304 TTTTGAATATTCTAATTA
1 TTTTGAATATTCTAATTA
985322 TTGCGGAAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 37 0.56
60 29 0.44
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (59 bp):
TTTTGAATATTCTAATTAAACCTCAAACTATGACTCTCATTCTAAATTAATCCCCAAAC
Found at i:992253 original size:24 final size:24
Alignment explanation
Indices: 992195--992253 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
992185 TTTTTTATTT
*
992195 TAAA-AAATTTTAAAAATATCAAA
1 TAAATAAATTTTAAAAATACCAAA
* *
992218 TAAATAACTTTTGAAAAT-CCAAA
1 TAAATAAATTTTAAAAATACCAAA
*
992241 TATATGAAATTTT
1 TAAAT-AAATTTT
992254 TAGTTTTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (24 bp):
TAAATAAATTTTAAAAATACCAAA
Found at i:996585 original size:19 final size:19
Alignment explanation
Indices: 996561--996612 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
996551 GAATGCAATT
996561 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
996580 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
996599 AGTGCATCGATGCA
1 AGTGCATCGATGCA
996613 CCTGCTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:997979 original size:20 final size:21
Alignment explanation
Indices: 997951--997989 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
997941 TTAGGCATTT
997951 AATAGAAAATATAA-AGAAAA
1 AATAGAAAATATAAGAGAAAA
*
997971 AATATAAAATATAAGAGAA
1 AATAGAAAATATAAGAGAA
997990 TTTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (21 bp):
AATAGAAAATATAAGAGAAAA
Found at i:999448 original size:20 final size:20
Alignment explanation
Indices: 999422--999502 Score: 101
Period size: 20 Copynumber: 4.0 Consensus size: 20
999412 AGTTTCCAAT
999422 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
* *
999442 TTTGCAACAC-AGAAGTCAAA
1 TTCGCAACGCGA-AAGTCAAA
* *
999462 TTCGCAACGAGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
999482 TTCGCAACGCAAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
999502 T
1 T
999503 GTTTTTACGC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:999466 original size:40 final size:40
Alignment explanation
Indices: 999422--999502 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
999412 AGTTTCCAAT
* * *
999422 TTCGCAACGCGAAAGTCAAATTTGCAACACAGAAGTCAAA
1 TTCGCAACGAGAAAGTCAAATTCGCAACACAAAAGTCAAA
* *
999462 TTCGCAACGAGATAGTCAAATTCGCAACGCAAAAGTCAAA
1 TTCGCAACGAGAAAGTCAAATTCGCAACACAAAAGTCAAA
999502 T
1 T
999503 GTTTTTACGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (40 bp):
TTCGCAACGAGAAAGTCAAATTCGCAACACAAAAGTCAAA
Found at i:999658 original size:22 final size:22
Alignment explanation
Indices: 999630--999680 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
999620 CTACGGCAAC
*
999630 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGAAGAA
*
999652 ATCCGTCCCCATTTCCGAAGAA
1 ATCCGTCCCCATCTCCGAAGAA
999674 ATCCGTC
1 ATCCGTC
999681 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGAAGAA
Found at i:999912 original size:13 final size:13
Alignment explanation
Indices: 999894--999925 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
999884 AGTATTTGTC
999894 TTTGTTTTATCTT
1 TTTGTTTTATCTT
*
999907 TTTGTTTTGTCTT
1 TTTGTTTTATCTT
999920 TTTGTT
1 TTTGTT
999926 GAAAAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.03, C:0.06, G:0.12, T:0.78
Consensus pattern (13 bp):
TTTGTTTTATCTT
Found at i:999980 original size:19 final size:20
Alignment explanation
Indices: 999937--999982 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
999927 AAAAAACCCC
*
999937 AAATCACAACGCAAAAATGA
1 AAATCGCAACGCAAAAATGA
* *
999957 AAATCGCAACGCGAAACT-A
1 AAATCGCAACGCAAAAATGA
999976 AAATCGC
1 AAATCGC
999983 GTTGCGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.52, C:0.24, G:0.13, T:0.11
Consensus pattern (20 bp):
AAATCGCAACGCAAAAATGA
Found at i:1002173 original size:21 final size:21
Alignment explanation
Indices: 1002147--1002259 Score: 77
Period size: 21 Copynumber: 5.4 Consensus size: 21
1002137 CCTATCATCA
*
1002147 TTCAAGAGGCGCCTCCTATCG
1 TTCAAGAGGCCCCTCCTATCG
*
1002168 TTCAAGAGACCCCT-CTCATC-
1 TTCAAGAGGCCCCTCCT-ATCG
* * * *
1002188 ATCGAAGAAGCCCCTCCCACCG
1 TTC-AAGAGGCCCCTCCTATCG
**
1002210 TTCAAGAGGCCCCTGTTATCG
1 TTCAAGAGGCCCCTCCTATCG
* * * **
1002231 TTCAAGTGGTCCCGCCTGCCG
1 TTCAAGAGGCCCCTCCTATCG
1002252 TTCAAGAG
1 TTCAAGAG
1002260 CTTGATTCAC
Statistics
Matches: 67, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
20 4 0.06
21 60 0.90
22 3 0.04
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.22
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCTATCG
Found at i:1003684 original size:14 final size:14
Alignment explanation
Indices: 1003665--1003704 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1003655 TTTTGATTAA
1003665 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
1003679 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
1003693 TTGATTTGTAAA
1 TTGATTTGTAAA
1003705 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:1003750 original size:66 final size:60
Alignment explanation
Indices: 1003615--1003754 Score: 163
Period size: 66 Copynumber: 2.2 Consensus size: 60
1003605 TTCTATATTG
**
1003615 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTATTTTTTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTATTTTTTGATTAATTGATTTACA
** * * *
1003675 AAAGTTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTAC
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAG-A-T-TTATTTT--TTGATTAATTGATTTAC
1003740 A
60 A
1003741 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
1003755 GTTTCTAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
60 17 0.25
61 13 0.19
62 1 0.01
63 1 0.01
64 6 0.09
66 29 0.43
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.51
Consensus pattern (60 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTATTTTTTGATTAATTGATTTACA
Found at i:1003839 original size:20 final size:20
Alignment explanation
Indices: 1003813--1003870 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
1003803 GTTGAAGGTA
1003813 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* *
1003833 TAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
1003853 CAAATTCGTAACGCGAAA
1 CAAATTCGCAACGCGAAA
1003871 TAAGCGTTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:1003934 original size:20 final size:20
Alignment explanation
Indices: 1003911--1003949 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1003901 GATTTTCAGT
*
1003911 TTGCGAATTTGACTTTCGCA
1 TTGCGAATTTAACTTTCGCA
1003931 TTGCGAATTTAACTTTCGC
1 TTGCGAATTTAACTTTCGC
1003950 GTTGATCGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTAACTTTCGCA
Found at i:1004184 original size:39 final size:39
Alignment explanation
Indices: 1004129--1004212 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
1004119 TCAAGTTGTA
* *
1004129 GATTTTGATTTCCTTTTGTTTGGCACCATATGAGATTTG
1 GATTTTAATTTCCTTTTGCTTGGCACCATATGAGATTTG
* *
1004168 GATTTTAATTTTCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTAATTTCCTTTTGCTTGGCACCATATGAGATTTG
1004207 GATTTT
1 GATTTT
1004213 GATGAGCATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.18, C:0.13, G:0.19, T:0.50
Consensus pattern (39 bp):
GATTTTAATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1004549 original size:18 final size:18
Alignment explanation
Indices: 1004526--1004562 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1004516 CGAAATTTAT
1004526 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1004544 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1004562 A
1 A
1004563 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1004984 original size:25 final size:25
Alignment explanation
Indices: 1004949--1004998 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1004939 ATTATTTTTC
*
1004949 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
*
1004974 CAAATAGTGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1004999 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:1005082 original size:20 final size:20
Alignment explanation
Indices: 1005059--1005096 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1005049 AGACCTATTG
*
1005059 AAGGTAAATTCGTAACGCGA
1 AAGGTAAATTCGCAACGCGA
1005079 AAGGTAAATTCGCAACGC
1 AAGGTAAATTCGCAACGC
1005097 AAAATAAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCGA
Found at i:1005212 original size:25 final size:25
Alignment explanation
Indices: 1005178--1005227 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1005168 ATTATTTTTC
*
1005178 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1005203 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1005228 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:1005311 original size:20 final size:20
Alignment explanation
Indices: 1005288--1005325 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1005278 AGACCTATTG
1005288 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCGCAACGCGA
1005308 AAGGTAAATTCGCAACGC
1 AAGGTAAATTCGCAACGC
1005326 AAAATAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCGA
Found at i:1005318 original size:229 final size:229
Alignment explanation
Indices: 1004917--1005375 Score: 882
Period size: 229 Copynumber: 2.0 Consensus size: 229
1004907 GAAAAAGGGT
*
1004917 TATTTCTAACGAAGTCCGGAACATTATTTTTCCAAATAATGTACCCATAACAATGTTCAAATAGT
1 TATTTCTAACGAAGTCCGGAACATTATTTTTCCAAATAATGTACCCATAACAATGTTCAAATAAT
1004982 GTACCCACAACAATGTTTAATTGATTTGTTGTTTAATTTTCAATCTGCATTATGTTGAAGGTAAA
66 GTACCCACAACAATGTTTAATTGATTTGTTGTTTAATTTTCAATCTGCATTATGTTGAAGGTAAA
* *
1005047 AAAGACCTATTGAAGGTAAATTCGTAACGCGAAAGGTAAATTCGCAACGCAAAATAAGCGTTGCG
131 AAAGACCTATTGAAGGTAAATTCGCAACGCGAAAGGTAAATTCGCAACGCAAAATAAGCATTGCG
1005112 ATAGTCAAATTCGCAACGCGAAAGTCAAATTCGG
196 ATAGTCAAATTCGCAACGCGAAAGTCAAATTCGG
*
1005146 TATTTCTAACGAAGTCTGGAACATTATTTTTCCAAATAATGTACCCATAACAATGTTCAAATAAT
1 TATTTCTAACGAAGTCCGGAACATTATTTTTCCAAATAATGTACCCATAACAATGTTCAAATAAT
1005211 GTACCCACAACAATGTTTAATTGATTTGTTGTTTAATTTTCAATCTGCATTATGTTGAAGGTAAA
66 GTACCCACAACAATGTTTAATTGATTTGTTGTTTAATTTTCAATCTGCATTATGTTGAAGGTAAA
1005276 AAAGACCTATTGAAGGTAAATTCGCAACGCGAAAGGTAAATTCGCAACGCAAAATAAGCATTGCG
131 AAAGACCTATTGAAGGTAAATTCGCAACGCGAAAGGTAAATTCGCAACGCAAAATAAGCATTGCG
1005341 ATAGTCAAATTCGCAACGCGAAAGTCAAATTCGG
196 ATAGTCAAATTCGCAACGCGAAAGTCAAATTCGG
1005375 T
1 T
1005376 TTGCGATTTC
Statistics
Matches: 226, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 226 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (229 bp):
TATTTCTAACGAAGTCCGGAACATTATTTTTCCAAATAATGTACCCATAACAATGTTCAAATAAT
GTACCCACAACAATGTTTAATTGATTTGTTGTTTAATTTTCAATCTGCATTATGTTGAAGGTAAA
AAAGACCTATTGAAGGTAAATTCGCAACGCGAAAGGTAAATTCGCAACGCAAAATAAGCATTGCG
ATAGTCAAATTCGCAACGCGAAAGTCAAATTCGG
Found at i:1005412 original size:20 final size:20
Alignment explanation
Indices: 1005384--1005425 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1005374 GTTTGCGATT
*
1005384 TCGCATTGCGAATTTGACTA
1 TCGCATTGCGAATTTGAATA
*
1005404 TCGCGTTGCGAATTTGAATA
1 TCGCATTGCGAATTTGAATA
1005424 TC
1 TC
1005426 CAACGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGAATTTGAATA
Found at i:1005464 original size:20 final size:20
Alignment explanation
Indices: 1005439--1005484 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1005429 CGCTTATTTT
*
1005439 GCGTTGCGAATTTGACTTTC
1 GCGTTGCGAATTTAACTTTC
1005459 GCGTTGCGAATTTAACTTTC
1 GCGTTGCGAATTTAACTTTC
*
1005479 GTGTTG
1 GCGTTG
1005485 ATCACAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.17, G:0.26, T:0.41
Consensus pattern (20 bp):
GCGTTGCGAATTTAACTTTC
Found at i:1005793 original size:18 final size:18
Alignment explanation
Indices: 1005770--1005805 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1005760 AAGCCGGTTG
1005770 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
1005788 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
1005806 CCTTTTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:1007879 original size:6 final size:6
Alignment explanation
Indices: 1007868--1007941 Score: 82
Period size: 6 Copynumber: 12.8 Consensus size: 6
1007858 CTTCGAGAAC
1007868 TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA TTC--- TTCTTA TTCTTA
1 TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA
* * * * *
1007913 TTCTTC TTATTC TTCTTC TTCTTT TTCTT
1 TTCTTA TTCTTA TTCTTA TTCTTA TTCTT
1007942 CAGGGTTATA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
3 3 0.05
6 58 0.95
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCTTA
Found at i:1007906 original size:9 final size:9
Alignment explanation
Indices: 1007874--1007935 Score: 67
Period size: 9 Copynumber: 7.2 Consensus size: 9
1007864 GAACTTCTTA
1007874 TTCTTATTC
1 TTCTTATTC
* * *
1007883 TTATTCTTA
1 TTCTTATTC
1007892 TTCTTATTC
1 TTCTTATTC
1007901 TTCTTA---
1 TTCTTATTC
1007907 TTCTTATTC
1 TTCTTATTC
1007916 TTCTTATTC
1 TTCTTATTC
*
1007925 TTCTTCTTC
1 TTCTTATTC
1007934 TT
1 TT
1007936 TTTCTTCAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
6 6 0.14
9 37 0.86
ACGTcount: A:0.11, C:0.21, G:0.00, T:0.68
Consensus pattern (9 bp):
TTCTTATTC
Found at i:1007906 original size:15 final size:15
Alignment explanation
Indices: 1007867--1007941 Score: 105
Period size: 15 Copynumber: 4.8 Consensus size: 15
1007857 TCTTCGAGAA
1007867 CTTCTTATTCTTATT
1 CTTCTTATTCTTATT
1007882 CTTATTCTTATTCTTATT
1 C---TTCTTATTCTTATT
1007900 CTTCTTATTCTTATT
1 CTTCTTATTCTTATT
*
1007915 CTTCTTATTCTTCTT
1 CTTCTTATTCTTATT
*
1007930 CTTCTTTTTCTT
1 CTTCTTATTCTT
1007942 CAGGGTTATA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
15 40 0.73
18 15 0.27
ACGTcount: A:0.11, C:0.21, G:0.00, T:0.68
Consensus pattern (15 bp):
CTTCTTATTCTTATT
Found at i:1008151 original size:24 final size:24
Alignment explanation
Indices: 1008117--1008170 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1008107 CCATCACATC
1008117 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1008141 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1008165 ATCAAA
1 ATCAAA
1008171 TTATGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1008317 original size:12 final size:12
Alignment explanation
Indices: 1008296--1008329 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1008286 TGTTGTGGGT
*
1008296 TTTGAGATTGTG
1 TTTGATATTGTG
1008308 TTTGATATTGTG
1 TTTGATATTGTG
*
1008320 TTTGGTATTG
1 TTTGATATTG
1008330 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1008902 original size:16 final size:16
Alignment explanation
Indices: 1008881--1008911 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1008871 AAATCATTGA
1008881 AAAATTATATAAAAAT
1 AAAATTATATAAAAAT
*
1008897 AAAATTATGTAAAAA
1 AAAATTATATAAAAA
1008912 AAATAGAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAATTATATAAAAAT
Found at i:1009136 original size:20 final size:20
Alignment explanation
Indices: 1009073--1009242 Score: 100
Period size: 19 Copynumber: 8.6 Consensus size: 20
1009063 ACTAAAACCT
* *
1009073 GTTGCGAAATT-AAATTAGC
1 GTTGCGAATTTGAAATTCGC
*
1009092 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
**
1009111 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGC
*
1009131 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAATTCGC
** * *
1009152 AATGTG-ATTT-ACATATTCAC
1 GTTGCGAATTTGA-A-ATTCGC
* * * *
1009172 GTTGAGAAATTGGAAACT-GG
1 GTTGCG-AATTTGAAATTCGC
* *
1009192 GTTGCGAAATTGGAATTCGC
1 GTTGCGAATTTGAAATTCGC
* *
1009212 GTTGCGAATTTGAGA-TCTC
1 GTTGCGAATTTGAAATTCGC
1009231 GTTGCGAATTTG
1 GTTGCGAATTTG
1009243 TTGATCATTT
Statistics
Matches: 111, Mismatches: 31, Indels: 18
0.69 0.19 0.11
Matches are distributed among these distances:
18 1 0.01
19 49 0.44
20 45 0.41
21 11 0.10
22 4 0.04
23 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:1011319 original size:23 final size:26
Alignment explanation
Indices: 1011284--1011331 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
1011274 GTTAGTTCAA
1011284 ATAATTAATTA-TTTTACTTAAAAAT
1 ATAATTAATTATTTTTACTTAAAAAT
*
1011309 ATAATT-A-TATTTTTTCTTAAAAA
1 ATAATTAATTATTTTTACTTAAAAA
1011332 CAATCCACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 13 0.62
25 6 0.29
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
ATAATTAATTATTTTTACTTAAAAAT
Found at i:1011327 original size:24 final size:25
Alignment explanation
Indices: 1011284--1011331 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1011274 GTTAGTTCAA
1011284 ATAATTAATTATTTTACTTAAAAAT
1 ATAATTAATTATTTTACTTAAAAAT
1011309 ATAATTATATT-TTTT-CTTAAAAA
1 ATAATTA-ATTATTTTACTTAAAAA
1011332 CAATCCACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.36
25 11 0.50
26 3 0.14
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAATTAATTATTTTACTTAAAAAT
Found at i:1032861 original size:14 final size:13
Alignment explanation
Indices: 1032802--1032864 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
1032792 TAAAATTATC
*
1032802 AAAACTAAAGAAA
1 AAAAATAAAGAAA
* **
1032815 AAGAGCAAAGAAA
1 AAAAATAAAGAAA
* *
1032828 AAAAATATAGTATA
1 AAAAATAAAG-AAA
1032842 AAAAATAAAGAAA
1 AAAAATAAAGAAA
1032855 AATAAATAAA
1 AA-AAATAAA
1032865 TATCGACAGT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
13 20 0.53
14 18 0.47
ACGTcount: A:0.75, C:0.03, G:0.10, T:0.13
Consensus pattern (13 bp):
AAAAATAAAGAAA
Found at i:1034501 original size:66 final size:66
Alignment explanation
Indices: 1034426--1034560 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 66
1034416 GTCTTGTAAA
1034426 TTAACATCTTTAAAAATTATACTTCTTAATATTAATATTAAAAATAAAAAATAATTTAATACCGA
1 TTAACATCTTTAAAAATTATACTTCTTAATATTAATATTAAAAATAAAAAATAATTTAATACCGA
1034491 T
66 T
*
1034492 TTAACATCTTTAAAAATTCTACTTCTTAATATTAATATTAAAAATAAAAAATAATTTAATACCGA
1 TTAACATCTTTAAAAATTATACTTCTTAATATTAATATTAAAAATAAAAAATAATTTAATACCGA
1034557 T
66 T
1034558 TTA
1 TTA
1034561 TTCTTAAAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (66 bp):
TTAACATCTTTAAAAATTATACTTCTTAATATTAATATTAAAAATAAAAAATAATTTAATACCGA
T
Found at i:1040735 original size:19 final size:19
Alignment explanation
Indices: 1040711--1040752 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1040701 TATTAGTTTG
1040711 ATGCATGGTCGTGAATATA
1 ATGCATGGTCGTGAATATA
1040730 ATGCATGGTCGTGAATATA
1 ATGCATGGTCGTGAATATA
1040749 ATGC
1 ATGC
1040753 CTGGAGACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (19 bp):
ATGCATGGTCGTGAATATA
Found at i:1042565 original size:27 final size:27
Alignment explanation
Indices: 1042534--1042588 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1042524 CACTAGACTA
1042534 TATTTAAACGATTAATGCCATATGTGT
1 TATTTAAACGATTAATGCCATATGTGT
* * * * *
1042561 TATTTTAAGGTTTAATGTCATTTGTGT
1 TATTTAAACGATTAATGCCATATGTGT
1042588 T
1 T
1042589 TTGATTCATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.49
Consensus pattern (27 bp):
TATTTAAACGATTAATGCCATATGTGT
Found at i:1042878 original size:32 final size:33
Alignment explanation
Indices: 1042821--1042888 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
1042811 TTTATAATCT
*
1042821 TTAGATAAAATTTAATAATTATTTTGTAACA-A
1 TTAGATAAAATTTAATAATCATTTTGTAACATA
* *
1042853 TTAGATAAAATTTAATGATCGTTTTGTAACATA
1 TTAGATAAAATTTAATAATCATTTTGTAACATA
1042886 TTA
1 TTA
1042889 TAAGTTTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (33 bp):
TTAGATAAAATTTAATAATCATTTTGTAACATA
Found at i:1043828 original size:2 final size:2
Alignment explanation
Indices: 1043821--1043900 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
1043811 ATACAACTAA
1043821 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1043863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1043901 TTTAAATCGA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1045272 original size:23 final size:23
Alignment explanation
Indices: 1045235--1045292 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
1045225 AGAACGTTAA
* * *
1045235 ATAAATTTTAAACGAATATGTTT
1 ATAAATATTAAACGAACATATTT
* *
1045258 GTAAATATTATACGAACATATTT
1 ATAAATATTAAACGAACATATTT
1045281 ATAAATATTAAA
1 ATAAATATTAAA
1045293 TAAATATATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (23 bp):
ATAAATATTAAACGAACATATTT
Found at i:1048362 original size:21 final size:21
Alignment explanation
Indices: 1048315--1048356 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1048305 TATTAAATTA
1048315 TAAAA-TAGATAAAAATACAT
1 TAAAATTAGATAAAAATACAT
1048335 TAAAATTAGATAAATAAT-CAT
1 TAAAATTAGATAAA-AATACAT
1048356 T
1 T
1048357 CTAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (21 bp):
TAAAATTAGATAAAAATACAT
Found at i:1060907 original size:23 final size:22
Alignment explanation
Indices: 1060872--1060928 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
1060862 AAGGGATTTC
* * *
1060872 AATTATTTGTAAAGTGATGTTA
1 AATTATTTTTAAAATAATGTTA
1060894 ATATTATTTTTAAAATAATGTTA
1 A-ATTATTTTTAAAATAATGTTA
1060917 AATTCATTTTTA
1 AATT-ATTTTTA
1060929 TATACGTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
AATTATTTTTAAAATAATGTTA
Found at i:1061072 original size:14 final size:14
Alignment explanation
Indices: 1061012--1061072 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
1061002 TCTTAAAAAA
* *
1061012 TAAATCTTAGATTA
1 TAAATCTTAAATTC
* *
1061026 TAATTCTTAAACTC
1 TAAATCTTAAATTC
1061040 TAAA-CTCTAAATT-
1 TAAATCT-TAAATTC
1061053 TAAAATCTTAAATTC
1 T-AAATCTTAAATTC
1061068 TAAAT
1 TAAAT
1061073 AGGACAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
13 3 0.08
14 31 0.84
15 3 0.08
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (14 bp):
TAAATCTTAAATTC
Found at i:1070253 original size:22 final size:23
Alignment explanation
Indices: 1070225--1070268 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1070215 CCCGTGTCGG
*
1070225 ATAAATAT-ATAATTTTATATCA
1 ATAAATATAAAAATTTTATATCA
1070247 ATAAATATGAAAAATTTTATAT
1 ATAAATAT-AAAAATTTTATAT
1070269 TAAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATAAATATAAAAATTTTATATCA
Found at i:1074284 original size:14 final size:14
Alignment explanation
Indices: 1074262--1074304 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
1074252 TTGATTATAT
* *
1074262 GTTCGTTTATATTC
1 GTTCATTTATGTTC
1074276 GTTCATTTATGTTC
1 GTTCATTTATGTTC
1074290 GTTCATTTATGTTC
1 GTTCATTTATGTTC
1074304 G
1 G
1074305 AACAAATGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.56
Consensus pattern (14 bp):
GTTCATTTATGTTC
Done.